http://bigdatasummerinst.sph.umich.edu/wiki2018/api.php?action=feedcontributions&feedformat=atom&user=Boni+Al-Haruni 2026-04-04T10:09:34Z User contributions MediaWiki 1.29.2 http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=126 2018-07-27T13:36:47Z

<p>Boni Al-Haruni: </p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> *[https://drive.google.com/file/d/1bFHy0xIXkfo14UFW_1xNO3cgVmhGV7lI/view?usp=sharing Natural Language Processing Slides] - Karandeep<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Natural Language Processing Lecture] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> *[https://drive.google.com/file/d/1e5k7N4sxRQe7cO5GM9PWZkeXrBK-Vlu0/view?usp=sharing Optimization] - Jiang<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fd5c0ca6-e387-48e0-8109-a92000d902ae Optimization Lecture] - Jiang<br /> <br /> ==== Day 23: July 18 ====<br /> *[https://drive.google.com/file/d/1bvIANAi2QBligYMu5r1zYhElmS4KIOc6/view?usp=sharing Scientific Presentations Slides] - Zoellner<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3790173a-b6db-403b-832b-a92100f32394 Scientific Presentations Lecture] - Zoellner<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4b34ca7b-86c7-4678-b514-a92100d7a146 Pick Me Lecture] - Griffiths<br /> <br /> ==== Day 24: July 19 ====<br /> *[https://drive.google.com/file/d/1jqQ0MiJgYm9bGlXzE5upRKuGLCD7rdyy/view?usp=sharing Epigenomics Slides] - Smith<br /> *[https://drive.google.com/file/d/1EM9pWl2lRZ7d5-zdp0mAtC6vOjCPklPb/view?usp=sharing Epigenomics Reading] - Smith<br /> *[https://drive.google.com/file/d/1zqtg9Zda9GY7_NFIQmgUwlD98nAQjGT-/view?usp=sharing Zhong Research] - Smith<br /> *[https://drive.google.com/file/d/1Bq0tP_VOnB6u3H6xTE_GqAd171PaBTDD/view?usp=sharing Epigenomics Supplementary Tables 1-5] - Smith<br /> *[https://drive.google.com/file/d/1HW_xukUj2KBENKxwmQK_zuAvLNuUNm2a/view?usp=sharing Epigenomics Supplementary Table 6] - Smith<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fcce8e3b-8316-4f9a-a082-a92200d76e40 Epigenomics Lecture] - Smith<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=8d883801-6438-4c67-83dc-a92200f34d6a Social Network Lecture] - Budak<br /> <br /> ==== Day 25: July 20 ====<br /> *[https://drive.google.com/file/d/1J_zJfBR-7KJGL7IjCXwBZOhdvPaCCjDx/view?usp=sharing Mathematical Modeling Slides] - Eisenberg<br /> *[https://drive.google.com/file/d/1GqsaDfVW7V0Bvn2l5iHXvsSv9SQ_FmwT/view?usp=sharing PolyA Simulation] - Eisenberg<br /> *[https://drive.google.com/file/d/1M2AF0lAjomIpONZcdgWCuJMC-L-MKYc8/view?usp=sharing PolyA R code] - Eisenberg<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dddff986-d7ae-46c9-b14d-a92300d7e0bf Mathematical Modeling Lecture] - Eisenberg<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=475a0ca7-f65d-4af2-ae73-a92300f39603 Journey Lecture] - Pedro Orozco, BDSI Student Coordinator<br /> <br /> == Day 29: Symposium ==<br /> &#039;&#039;&#039;2018 Professor Lectures Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> *[https://drive.google.com/file/d/1ukz_fd4kLGR2JaqjbAdFz6HuRmkD9BdM/view?usp=sharing Symposium Welcome Remarks]<br /> *[https://drive.google.com/file/d/1yUAUsxe_aElBdfZDItsdkBFKgJs9Ig8N/view?usp=sharing Calibration Concordance] - Chen<br /> *[https://drive.google.com/file/d/1U8Rt4mDPAmZuqv9RXhsPkMnL1VmoI3G0/view?usp=sharing Data Science and Predictive Health Analytics] - Dinov<br /> *[https://drive.google.com/file/d/118HtI_euaMBmCl7-bibqDYJPRlablmOY/view?usp=sharing Models of Human Choice] - Feinberg<br /> *[https://drive.google.com/file/d/1O3q32tp2J87Tmigz75ozVAonX-YYKwam/view?usp=sharing Linking Tumor with Personalized Medicine] - Rao<br /> *[https://drive.google.com/file/d/1eFBzOkXbNyaP4s0o7kemHVSbhgxfqUmz/view?usp=sharing Humanist Approach to Data Science] - Schutt<br /> *[https://drive.google.com/file/d/1kuDFENM8UwzxL_ve70jwca717RTDjzXA/view?usp=sharing Big Data in the Social Sciences] - Titunik<br /> *[https://drive.google.com/file/d/19bnSFP9xPQg7i6lQ1bdO439Gj7iyf1R9/view?usp=sharing Detecting Epistasis in Large Scale Genetic Mapping] - Zhou<br /> &#039;&#039;&#039;2018 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/1TGNqkCAV9eBJ_-zHbiU-yo3N4Aowm_HB/view?usp=sharing Imaging Group Presentation]<br /> *[https://drive.google.com/file/d/1S01_WV6wfJ6BE2Op-01byw0WFUZadPjR/view?usp=sharing Machine Learning Group Presentation]<br /> *[https://drive.google.com/file/d/1LlZgR4TAlyYaS88bQ6qgZncWFuS0lFuC/view?usp=sharing Genetics Group Presentation]<br /> *[https://drive.google.com/file/d/1HqWZFGjHgIYOoqqlpQxc0qn9y7PTa4hD/view?usp=sharing Data Mining Presentation]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=125 2018-07-27T13:36:01Z

<p>Boni Al-Haruni: /* Day 29: Symposium */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> *[https://drive.google.com/file/d/1bFHy0xIXkfo14UFW_1xNO3cgVmhGV7lI/view?usp=sharing Natural Language Processing Slides] - Karandeep<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Natural Language Processing Lecture] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> *[https://drive.google.com/file/d/1e5k7N4sxRQe7cO5GM9PWZkeXrBK-Vlu0/view?usp=sharing Optimization] - Jiang<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fd5c0ca6-e387-48e0-8109-a92000d902ae Optimization Lecture] - Jiang<br /> <br /> ==== Day 23: July 18 ====<br /> *[https://drive.google.com/file/d/1bvIANAi2QBligYMu5r1zYhElmS4KIOc6/view?usp=sharing Scientific Presentations Slides] - Zoellner<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3790173a-b6db-403b-832b-a92100f32394 Scientific Presentations Lecture] - Zoellner<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4b34ca7b-86c7-4678-b514-a92100d7a146 Pick Me Lecture] - Griffiths<br /> <br /> ==== Day 24: July 19 ====<br /> *[https://drive.google.com/file/d/1jqQ0MiJgYm9bGlXzE5upRKuGLCD7rdyy/view?usp=sharing Epigenomics Slides] - Smith<br /> *[https://drive.google.com/file/d/1EM9pWl2lRZ7d5-zdp0mAtC6vOjCPklPb/view?usp=sharing Epigenomics Reading] - Smith<br /> *[https://drive.google.com/file/d/1zqtg9Zda9GY7_NFIQmgUwlD98nAQjGT-/view?usp=sharing Zhong Research] - Smith<br /> *[https://drive.google.com/file/d/1Bq0tP_VOnB6u3H6xTE_GqAd171PaBTDD/view?usp=sharing Epigenomics Supplementary Tables 1-5] - Smith<br /> *[https://drive.google.com/file/d/1HW_xukUj2KBENKxwmQK_zuAvLNuUNm2a/view?usp=sharing Epigenomics Supplementary Table 6] - Smith<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fcce8e3b-8316-4f9a-a082-a92200d76e40 Epigenomics Lecture] - Smith<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=8d883801-6438-4c67-83dc-a92200f34d6a Social Network Lecture] - Budak<br /> <br /> ==== Day 25: July 20 ====<br /> *[https://drive.google.com/file/d/1J_zJfBR-7KJGL7IjCXwBZOhdvPaCCjDx/view?usp=sharing Mathematical Modeling Slides] - Eisenberg<br /> *[https://drive.google.com/file/d/1GqsaDfVW7V0Bvn2l5iHXvsSv9SQ_FmwT/view?usp=sharing PolyA Simulation] - Eisenberg<br /> *[https://drive.google.com/file/d/1M2AF0lAjomIpONZcdgWCuJMC-L-MKYc8/view?usp=sharing PolyA R code] - Eisenberg<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dddff986-d7ae-46c9-b14d-a92300d7e0bf Mathematical Modeling Lecture] - Eisenberg<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=475a0ca7-f65d-4af2-ae73-a92300f39603 Journey Lecture] - Pedro Orozco, BDSI Student Coordinator<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> &#039;&#039;&#039;2018 Professor Lectures Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> *[https://drive.google.com/file/d/1ukz_fd4kLGR2JaqjbAdFz6HuRmkD9BdM/view?usp=sharing Symposium Welcome Remarks]<br /> *[https://drive.google.com/file/d/1yUAUsxe_aElBdfZDItsdkBFKgJs9Ig8N/view?usp=sharing Calibration Concordance] - Chen<br /> *[https://drive.google.com/file/d/1U8Rt4mDPAmZuqv9RXhsPkMnL1VmoI3G0/view?usp=sharing Data Science and Predictive Health Analytics] - Dinov<br /> *[https://drive.google.com/file/d/118HtI_euaMBmCl7-bibqDYJPRlablmOY/view?usp=sharing Models of Human Choice] - Feinberg<br /> *[https://drive.google.com/file/d/1O3q32tp2J87Tmigz75ozVAonX-YYKwam/view?usp=sharing Linking Tumor with Personalized Medicine] - Rao<br /> *[https://drive.google.com/file/d/1eFBzOkXbNyaP4s0o7kemHVSbhgxfqUmz/view?usp=sharing Humanist Approach to Data Science] - Schutt<br /> *[https://drive.google.com/file/d/1kuDFENM8UwzxL_ve70jwca717RTDjzXA/view?usp=sharing Big Data in the Social Sciences] - Titunik<br /> *[https://drive.google.com/file/d/19bnSFP9xPQg7i6lQ1bdO439Gj7iyf1R9/view?usp=sharing Detecting Epistasis in Large Scale Genetic Mapping] - Zhou<br /> &#039;&#039;&#039;2018 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/1TGNqkCAV9eBJ_-zHbiU-yo3N4Aowm_HB/view?usp=sharing Imaging Group Presentation]<br /> *[https://drive.google.com/file/d/1S01_WV6wfJ6BE2Op-01byw0WFUZadPjR/view?usp=sharing Machine Learning Group Presentation]<br /> *[https://drive.google.com/file/d/1LlZgR4TAlyYaS88bQ6qgZncWFuS0lFuC/view?usp=sharing Genetics Group Presentation]<br /> *[https://drive.google.com/file/d/1HqWZFGjHgIYOoqqlpQxc0qn9y7PTa4hD/view?usp=sharing Data Mining Presentation]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=124 2018-07-27T13:35:28Z

<p>Boni Al-Haruni: /* Day 29: Symposium */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> *[https://drive.google.com/file/d/1bFHy0xIXkfo14UFW_1xNO3cgVmhGV7lI/view?usp=sharing Natural Language Processing Slides] - Karandeep<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Natural Language Processing Lecture] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> *[https://drive.google.com/file/d/1e5k7N4sxRQe7cO5GM9PWZkeXrBK-Vlu0/view?usp=sharing Optimization] - Jiang<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fd5c0ca6-e387-48e0-8109-a92000d902ae Optimization Lecture] - Jiang<br /> <br /> ==== Day 23: July 18 ====<br /> *[https://drive.google.com/file/d/1bvIANAi2QBligYMu5r1zYhElmS4KIOc6/view?usp=sharing Scientific Presentations Slides] - Zoellner<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3790173a-b6db-403b-832b-a92100f32394 Scientific Presentations Lecture] - Zoellner<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4b34ca7b-86c7-4678-b514-a92100d7a146 Pick Me Lecture] - Griffiths<br /> <br /> ==== Day 24: July 19 ====<br /> *[https://drive.google.com/file/d/1jqQ0MiJgYm9bGlXzE5upRKuGLCD7rdyy/view?usp=sharing Epigenomics Slides] - Smith<br /> *[https://drive.google.com/file/d/1EM9pWl2lRZ7d5-zdp0mAtC6vOjCPklPb/view?usp=sharing Epigenomics Reading] - Smith<br /> *[https://drive.google.com/file/d/1zqtg9Zda9GY7_NFIQmgUwlD98nAQjGT-/view?usp=sharing Zhong Research] - Smith<br /> *[https://drive.google.com/file/d/1Bq0tP_VOnB6u3H6xTE_GqAd171PaBTDD/view?usp=sharing Epigenomics Supplementary Tables 1-5] - Smith<br /> *[https://drive.google.com/file/d/1HW_xukUj2KBENKxwmQK_zuAvLNuUNm2a/view?usp=sharing Epigenomics Supplementary Table 6] - Smith<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fcce8e3b-8316-4f9a-a082-a92200d76e40 Epigenomics Lecture] - Smith<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=8d883801-6438-4c67-83dc-a92200f34d6a Social Network Lecture] - Budak<br /> <br /> ==== Day 25: July 20 ====<br /> *[https://drive.google.com/file/d/1J_zJfBR-7KJGL7IjCXwBZOhdvPaCCjDx/view?usp=sharing Mathematical Modeling Slides] - Eisenberg<br /> *[https://drive.google.com/file/d/1GqsaDfVW7V0Bvn2l5iHXvsSv9SQ_FmwT/view?usp=sharing PolyA Simulation] - Eisenberg<br /> *[https://drive.google.com/file/d/1M2AF0lAjomIpONZcdgWCuJMC-L-MKYc8/view?usp=sharing PolyA R code] - Eisenberg<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dddff986-d7ae-46c9-b14d-a92300d7e0bf Mathematical Modeling Lecture] - Eisenberg<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=475a0ca7-f65d-4af2-ae73-a92300f39603 Journey Lecture] - Pedro Orozco, BDSI Student Coordinator<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> &#039;&#039;&#039;2018 Professor Lectures Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> *[https://drive.google.com/file/d/1ukz_fd4kLGR2JaqjbAdFz6HuRmkD9BdM/view?usp=sharing Symposium Welcome Remarks<br /> *[https://drive.google.com/file/d/1yUAUsxe_aElBdfZDItsdkBFKgJs9Ig8N/view?usp=sharing Calibration Concordance] - Chen<br /> *[https://drive.google.com/file/d/1U8Rt4mDPAmZuqv9RXhsPkMnL1VmoI3G0/view?usp=sharing Data Science and Predictive Health Analytics] - Dinov<br /> *[https://drive.google.com/file/d/118HtI_euaMBmCl7-bibqDYJPRlablmOY/view?usp=sharing Models of Human Choice] - Feinberg<br /> *[https://drive.google.com/file/d/1O3q32tp2J87Tmigz75ozVAonX-YYKwam/view?usp=sharing Linking Tumor with Personalized Medicine] - Rao<br /> *[https://drive.google.com/file/d/1eFBzOkXbNyaP4s0o7kemHVSbhgxfqUmz/view?usp=sharing Humanist Approach to Data Science] - Schutt<br /> *[https://drive.google.com/file/d/1kuDFENM8UwzxL_ve70jwca717RTDjzXA/view?usp=sharing Big Data in the Social Sciences] - Titunik<br /> *[https://drive.google.com/file/d/19bnSFP9xPQg7i6lQ1bdO439Gj7iyf1R9/view?usp=sharing Detecting Epistasis in Large Scale Genetic Mapping] - Zhou<br /> &#039;&#039;&#039;2018 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/1TGNqkCAV9eBJ_-zHbiU-yo3N4Aowm_HB/view?usp=sharing Imaging Group Presentation]<br /> *[https://drive.google.com/file/d/1S01_WV6wfJ6BE2Op-01byw0WFUZadPjR/view?usp=sharing Machine Learning Group Presentation]<br /> *[https://drive.google.com/file/d/1LlZgR4TAlyYaS88bQ6qgZncWFuS0lFuC/view?usp=sharing Genetics Group Presentation]<br /> *[https://drive.google.com/file/d/1HqWZFGjHgIYOoqqlpQxc0qn9y7PTa4hD/view?usp=sharing Data Mining Presentation]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=123 2018-07-26T21:16:55Z

<p>Boni Al-Haruni: /* Day 29: Symposium */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> *[https://drive.google.com/file/d/1bFHy0xIXkfo14UFW_1xNO3cgVmhGV7lI/view?usp=sharing Natural Language Processing Slides] - Karandeep<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Natural Language Processing Lecture] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> *[https://drive.google.com/file/d/1e5k7N4sxRQe7cO5GM9PWZkeXrBK-Vlu0/view?usp=sharing Optimization] - Jiang<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fd5c0ca6-e387-48e0-8109-a92000d902ae Optimization Lecture] - Jiang<br /> <br /> ==== Day 23: July 18 ====<br /> *[https://drive.google.com/file/d/1bvIANAi2QBligYMu5r1zYhElmS4KIOc6/view?usp=sharing Scientific Presentations Slides] - Zoellner<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3790173a-b6db-403b-832b-a92100f32394 Scientific Presentations Lecture] - Zoellner<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4b34ca7b-86c7-4678-b514-a92100d7a146 Pick Me Lecture] - Griffiths<br /> <br /> ==== Day 24: July 19 ====<br /> *[https://drive.google.com/file/d/1jqQ0MiJgYm9bGlXzE5upRKuGLCD7rdyy/view?usp=sharing Epigenomics Slides] - Smith<br /> *[https://drive.google.com/file/d/1EM9pWl2lRZ7d5-zdp0mAtC6vOjCPklPb/view?usp=sharing Epigenomics Reading] - Smith<br /> *[https://drive.google.com/file/d/1zqtg9Zda9GY7_NFIQmgUwlD98nAQjGT-/view?usp=sharing Zhong Research] - Smith<br /> *[https://drive.google.com/file/d/1Bq0tP_VOnB6u3H6xTE_GqAd171PaBTDD/view?usp=sharing Epigenomics Supplementary Tables 1-5] - Smith<br /> *[https://drive.google.com/file/d/1HW_xukUj2KBENKxwmQK_zuAvLNuUNm2a/view?usp=sharing Epigenomics Supplementary Table 6] - Smith<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fcce8e3b-8316-4f9a-a082-a92200d76e40 Epigenomics Lecture] - Smith<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=8d883801-6438-4c67-83dc-a92200f34d6a Social Network Lecture] - Budak<br /> <br /> ==== Day 25: July 20 ====<br /> *[https://drive.google.com/file/d/1J_zJfBR-7KJGL7IjCXwBZOhdvPaCCjDx/view?usp=sharing Mathematical Modeling Slides] - Eisenberg<br /> *[https://drive.google.com/file/d/1GqsaDfVW7V0Bvn2l5iHXvsSv9SQ_FmwT/view?usp=sharing PolyA Simulation] - Eisenberg<br /> *[https://drive.google.com/file/d/1M2AF0lAjomIpONZcdgWCuJMC-L-MKYc8/view?usp=sharing PolyA R code] - Eisenberg<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dddff986-d7ae-46c9-b14d-a92300d7e0bf Mathematical Modeling Lecture] - Eisenberg<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=475a0ca7-f65d-4af2-ae73-a92300f39603 Journey Lecture] - Pedro Orozco, BDSI Student Coordinator<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> <br /> &#039;&#039;&#039;2018 Professor Lectures Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/1yUAUsxe_aElBdfZDItsdkBFKgJs9Ig8N/view?usp=sharing Calibration Concordance] - Chen<br /> &#039;&#039;&#039;2018 Student Poster Presentations&#039;&#039;&#039;<br /> <br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=122 2018-07-23T15:43:44Z

<p>Boni Al-Haruni: /* Recorded Lectures */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> *[https://drive.google.com/file/d/1bFHy0xIXkfo14UFW_1xNO3cgVmhGV7lI/view?usp=sharing Natural Language Processing Slides] - Karandeep<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Natural Language Processing Lecture] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> *[https://drive.google.com/file/d/1e5k7N4sxRQe7cO5GM9PWZkeXrBK-Vlu0/view?usp=sharing Optimization] - Jiang<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fd5c0ca6-e387-48e0-8109-a92000d902ae Optimization Lecture] - Jiang<br /> <br /> ==== Day 23: July 18 ====<br /> *[https://drive.google.com/file/d/1bvIANAi2QBligYMu5r1zYhElmS4KIOc6/view?usp=sharing Scientific Presentations Slides] - Zoellner<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3790173a-b6db-403b-832b-a92100f32394 Scientific Presentations Lecture] - Zoellner<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4b34ca7b-86c7-4678-b514-a92100d7a146 Pick Me Lecture] - Griffiths<br /> <br /> ==== Day 24: July 19 ====<br /> *[https://drive.google.com/file/d/1jqQ0MiJgYm9bGlXzE5upRKuGLCD7rdyy/view?usp=sharing Epigenomics Slides] - Smith<br /> *[https://drive.google.com/file/d/1EM9pWl2lRZ7d5-zdp0mAtC6vOjCPklPb/view?usp=sharing Epigenomics Reading] - Smith<br /> *[https://drive.google.com/file/d/1zqtg9Zda9GY7_NFIQmgUwlD98nAQjGT-/view?usp=sharing Zhong Research] - Smith<br /> *[https://drive.google.com/file/d/1Bq0tP_VOnB6u3H6xTE_GqAd171PaBTDD/view?usp=sharing Epigenomics Supplementary Tables 1-5] - Smith<br /> *[https://drive.google.com/file/d/1HW_xukUj2KBENKxwmQK_zuAvLNuUNm2a/view?usp=sharing Epigenomics Supplementary Table 6] - Smith<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fcce8e3b-8316-4f9a-a082-a92200d76e40 Epigenomics Lecture] - Smith<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=8d883801-6438-4c67-83dc-a92200f34d6a Social Network Lecture] - Budak<br /> <br /> ==== Day 25: July 20 ====<br /> *[https://drive.google.com/file/d/1J_zJfBR-7KJGL7IjCXwBZOhdvPaCCjDx/view?usp=sharing Mathematical Modeling Slides] - Eisenberg<br /> *[https://drive.google.com/file/d/1GqsaDfVW7V0Bvn2l5iHXvsSv9SQ_FmwT/view?usp=sharing PolyA Simulation] - Eisenberg<br /> *[https://drive.google.com/file/d/1M2AF0lAjomIpONZcdgWCuJMC-L-MKYc8/view?usp=sharing PolyA R code] - Eisenberg<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dddff986-d7ae-46c9-b14d-a92300d7e0bf Mathematical Modeling Lecture] - Eisenberg<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=475a0ca7-f65d-4af2-ae73-a92300f39603 Journey Lecture] - Pedro Orozco, BDSI Student Coordinator<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=121 2018-07-23T15:42:44Z

<p>Boni Al-Haruni: /* Day 25: July 20 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> *[https://drive.google.com/file/d/1bFHy0xIXkfo14UFW_1xNO3cgVmhGV7lI/view?usp=sharing Natural Language Processing Slides] - Karandeep<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Natural Language Processing Lecture] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> *[https://drive.google.com/file/d/1e5k7N4sxRQe7cO5GM9PWZkeXrBK-Vlu0/view?usp=sharing Optimization] - Jiang<br /> =====Recorded Lectures=====<br /> <br /> ==== Day 23: July 18 ====<br /> *[https://drive.google.com/file/d/1bvIANAi2QBligYMu5r1zYhElmS4KIOc6/view?usp=sharing Scientific Presentations Slides] - Zoellner<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3790173a-b6db-403b-832b-a92100f32394 Scientific Presentations Lecture] - Zoellner<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4b34ca7b-86c7-4678-b514-a92100d7a146 Pick Me Lecture] - Griffiths<br /> <br /> ==== Day 24: July 19 ====<br /> *[https://drive.google.com/file/d/1jqQ0MiJgYm9bGlXzE5upRKuGLCD7rdyy/view?usp=sharing Epigenomics Slides] - Smith<br /> *[https://drive.google.com/file/d/1EM9pWl2lRZ7d5-zdp0mAtC6vOjCPklPb/view?usp=sharing Epigenomics Reading] - Smith<br /> *[https://drive.google.com/file/d/1zqtg9Zda9GY7_NFIQmgUwlD98nAQjGT-/view?usp=sharing Zhong Research] - Smith<br /> *[https://drive.google.com/file/d/1Bq0tP_VOnB6u3H6xTE_GqAd171PaBTDD/view?usp=sharing Epigenomics Supplementary Tables 1-5] - Smith<br /> *[https://drive.google.com/file/d/1HW_xukUj2KBENKxwmQK_zuAvLNuUNm2a/view?usp=sharing Epigenomics Supplementary Table 6] - Smith<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fcce8e3b-8316-4f9a-a082-a92200d76e40 Epigenomics Lecture] - Smith<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=8d883801-6438-4c67-83dc-a92200f34d6a Social Network Lecture] - Budak<br /> <br /> ==== Day 25: July 20 ====<br /> *[https://drive.google.com/file/d/1J_zJfBR-7KJGL7IjCXwBZOhdvPaCCjDx/view?usp=sharing Mathematical Modeling Slides] - Eisenberg<br /> *[https://drive.google.com/file/d/1GqsaDfVW7V0Bvn2l5iHXvsSv9SQ_FmwT/view?usp=sharing PolyA Simulation] - Eisenberg<br /> *[https://drive.google.com/file/d/1M2AF0lAjomIpONZcdgWCuJMC-L-MKYc8/view?usp=sharing PolyA R code] - Eisenberg<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dddff986-d7ae-46c9-b14d-a92300d7e0bf Mathematical Modeling Lecture] - Eisenberg<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=475a0ca7-f65d-4af2-ae73-a92300f39603 Journey Lecture] - Pedro Orozco, BDSI Student Coordinator<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=120 2018-07-23T15:29:33Z

<p>Boni Al-Haruni: /* Day 24: July 19 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> *[https://drive.google.com/file/d/1bFHy0xIXkfo14UFW_1xNO3cgVmhGV7lI/view?usp=sharing Natural Language Processing Slides] - Karandeep<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Natural Language Processing Lecture] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> *[https://drive.google.com/file/d/1e5k7N4sxRQe7cO5GM9PWZkeXrBK-Vlu0/view?usp=sharing Optimization] - Jiang<br /> =====Recorded Lectures=====<br /> <br /> ==== Day 23: July 18 ====<br /> *[https://drive.google.com/file/d/1bvIANAi2QBligYMu5r1zYhElmS4KIOc6/view?usp=sharing Scientific Presentations Slides] - Zoellner<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3790173a-b6db-403b-832b-a92100f32394 Scientific Presentations Lecture] - Zoellner<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4b34ca7b-86c7-4678-b514-a92100d7a146 Pick Me Lecture] - Griffiths<br /> <br /> ==== Day 24: July 19 ====<br /> *[https://drive.google.com/file/d/1jqQ0MiJgYm9bGlXzE5upRKuGLCD7rdyy/view?usp=sharing Epigenomics Slides] - Smith<br /> *[https://drive.google.com/file/d/1EM9pWl2lRZ7d5-zdp0mAtC6vOjCPklPb/view?usp=sharing Epigenomics Reading] - Smith<br /> *[https://drive.google.com/file/d/1zqtg9Zda9GY7_NFIQmgUwlD98nAQjGT-/view?usp=sharing Zhong Research] - Smith<br /> *[https://drive.google.com/file/d/1Bq0tP_VOnB6u3H6xTE_GqAd171PaBTDD/view?usp=sharing Epigenomics Supplementary Tables 1-5] - Smith<br /> *[https://drive.google.com/file/d/1HW_xukUj2KBENKxwmQK_zuAvLNuUNm2a/view?usp=sharing Epigenomics Supplementary Table 6] - Smith<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fcce8e3b-8316-4f9a-a082-a92200d76e40 Epigenomics Lecture] - Smith<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=8d883801-6438-4c67-83dc-a92200f34d6a Social Network Lecture] - Budak<br /> <br /> ==== Day 25: July 20 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dddff986-d7ae-46c9-b14d-a92300d7e0bf Mathematical Modeling Lecture] - Eisenberg<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=475a0ca7-f65d-4af2-ae73-a92300f39603 Journey Lecture] - Pedro Orozco, BDSI Student Coordinator<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=119 2018-07-23T15:20:13Z

<p>Boni Al-Haruni: /* Day 23: July 18 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> *[https://drive.google.com/file/d/1bFHy0xIXkfo14UFW_1xNO3cgVmhGV7lI/view?usp=sharing Natural Language Processing Slides] - Karandeep<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Natural Language Processing Lecture] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> *[https://drive.google.com/file/d/1e5k7N4sxRQe7cO5GM9PWZkeXrBK-Vlu0/view?usp=sharing Optimization] - Jiang<br /> =====Recorded Lectures=====<br /> <br /> ==== Day 23: July 18 ====<br /> *[https://drive.google.com/file/d/1bvIANAi2QBligYMu5r1zYhElmS4KIOc6/view?usp=sharing Scientific Presentations Slides] - Zoellner<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3790173a-b6db-403b-832b-a92100f32394 Scientific Presentations Lecture] - Zoellner<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4b34ca7b-86c7-4678-b514-a92100d7a146 Pick Me Lecture] - Griffiths<br /> <br /> ==== Day 24: July 19 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fcce8e3b-8316-4f9a-a082-a92200d76e40 Epigenomics Lecture] - Smith<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=8d883801-6438-4c67-83dc-a92200f34d6a Social Network Lecture] - Budak<br /> <br /> ==== Day 25: July 20 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dddff986-d7ae-46c9-b14d-a92300d7e0bf Mathematical Modeling Lecture] - Eisenberg<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=475a0ca7-f65d-4af2-ae73-a92300f39603 Journey Lecture] - Pedro Orozco, BDSI Student Coordinator<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=118 2018-07-23T15:16:54Z

<p>Boni Al-Haruni: /* Recorded Lectures */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> *[https://drive.google.com/file/d/1bFHy0xIXkfo14UFW_1xNO3cgVmhGV7lI/view?usp=sharing Natural Language Processing Slides] - Karandeep<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Natural Language Processing Lecture] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> *[https://drive.google.com/file/d/1e5k7N4sxRQe7cO5GM9PWZkeXrBK-Vlu0/view?usp=sharing Optimization] - Jiang<br /> =====Recorded Lectures=====<br /> <br /> ==== Day 23: July 18 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3790173a-b6db-403b-832b-a92100f32394 Scientific Presentations Lecture] - Zoellner<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4b34ca7b-86c7-4678-b514-a92100d7a146 Pick Me Lecture] - Griffiths<br /> <br /> ==== Day 24: July 19 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fcce8e3b-8316-4f9a-a082-a92200d76e40 Epigenomics Lecture] - Smith<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=8d883801-6438-4c67-83dc-a92200f34d6a Social Network Lecture] - Budak<br /> <br /> ==== Day 25: July 20 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dddff986-d7ae-46c9-b14d-a92300d7e0bf Mathematical Modeling Lecture] - Eisenberg<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=475a0ca7-f65d-4af2-ae73-a92300f39603 Journey Lecture] - Pedro Orozco, BDSI Student Coordinator<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=117 2018-07-23T15:16:36Z

<p>Boni Al-Haruni: /* Week 5 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> *[https://drive.google.com/file/d/1bFHy0xIXkfo14UFW_1xNO3cgVmhGV7lI/view?usp=sharing Natural Language Processing Slides] - Karandeep<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Natural Language Processing Lecture] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> *[https://drive.google.com/file/d/1e5k7N4sxRQe7cO5GM9PWZkeXrBK-Vlu0/view?usp=sharing Optimization] - Jiang<br /> =====Recorded Lectures=====<br /> <br /> ==== Day 23: July 18 ====<br /> =====Recorded Lectures=====<br /> [https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3790173a-b6db-403b-832b-a92100f32394 Scientific Presentations Lecture] - Zoellner<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4b34ca7b-86c7-4678-b514-a92100d7a146 Pick Me Lecture] - Griffiths<br /> <br /> <br /> ==== Day 24: July 19 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fcce8e3b-8316-4f9a-a082-a92200d76e40 Epigenomics Lecture] - Smith<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=8d883801-6438-4c67-83dc-a92200f34d6a Social Network Lecture] - Budak<br /> <br /> ==== Day 25: July 20 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dddff986-d7ae-46c9-b14d-a92300d7e0bf Mathematical Modeling Lecture] - Eisenberg<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=475a0ca7-f65d-4af2-ae73-a92300f39603 Journey Lecture] - Pedro Orozco, BDSI Student Coordinator<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=116 2018-07-17T16:05:48Z

<p>Boni Al-Haruni: /* Day 22: July 17 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> *[https://drive.google.com/file/d/1bFHy0xIXkfo14UFW_1xNO3cgVmhGV7lI/view?usp=sharing Natural Language Processing Slides] - Karandeep<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Natural Language Processing Lecture] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> *[https://drive.google.com/file/d/1e5k7N4sxRQe7cO5GM9PWZkeXrBK-Vlu0/view?usp=sharing Optimization] - Jiang<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=115 2018-07-17T15:59:16Z

<p>Boni Al-Haruni: /* Day 21: July 16 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> *[https://drive.google.com/file/d/1bFHy0xIXkfo14UFW_1xNO3cgVmhGV7lI/view?usp=sharing Natural Language Processing Slides] - Karandeep<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Natural Language Processing Lecture] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=114 2018-07-17T15:58:06Z

<p>Boni Al-Haruni: /* Day 21: July 16 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Health Informatics] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=113 2018-07-17T15:57:44Z

<p>Boni Al-Haruni: /* Day 21: July 16 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=64bed0b1-05b0-434d-9391-a91f00d7c476 Health Informatics] - Karandeep<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=112 2018-07-17T15:53:40Z

<p>Boni Al-Haruni: /* Day 20: July 13 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> *[https://drive.google.com/file/d/1OCKujwZEXYVfyxgsmibwpJvnezwHPiZw/view?usp=sharing Resume/CV Slides] - Forbes<br /> *[https://drive.google.com/file/d/1A6_90NN2kHx6b4go9VB5JWn3VilP4YsL/view?usp=sharing Resume Rubric] - Forbes<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=111 2018-07-17T15:51:39Z

<p>Boni Al-Haruni: /* Day 19: July 12 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> *[https://drive.google.com/file/d/1YfvcL0-nPdajVxQSqwfz8p1rUtfpeygN/view?usp=sharing Predictive Analytics Slides] - Denton<br /> <br /> ==== Day 20: July 13 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=110 2018-07-17T15:47:04Z

<p>Boni Al-Haruni: /* Week 4 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61c8da1d-2532-4e31-a97a-a91a00f33b66 Qunn Lecture] - Quinn<br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=0b4d27bd-a831-4890-b09c-a91c00d84978 Resume/CVs Lecture] - Forbes<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=109 2018-07-17T15:13:46Z

<p>Boni Al-Haruni: /* 2017 Symposium Projects */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-Zm5RWHByeWdUd2M/view?usp=sharing A Time-to-Event Analysis of Heart Failure via Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-UEIwRVNZaVJXRFk/view?usp=sharing Melanoma Detection by Classifying Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VEk4RExSSkV3NGM/view?usp=sharing Classifying Skin Lesions Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-RDR1UmtsV3hFUVk/view?usp=sharing Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-YWs0alJGdTA3UE0/view?usp=sharing Genomics: Genome Storage and Assembly]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-SU1KWFdPcWZzMEk/view?usp=sharing Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VGhDZlZZeHAyRDQ/view?usp=sharing Classification of Cell Types from Peripheral Mononuclear Blood Cells]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-bzRTUTlQek9JRGM/view?usp=sharing EHR-Based Study of Long-Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VjRsZkJfalVNbVk/view?usp=sharing Visualizing Lab and Phenotype Associations Using PheWAS and Electronic Health Records]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NXJoemNibTFxZXc/view?usp=sharing Data Mining: Microenvironment Microarray Spot Based Approach for Cell Prediction]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-VDdJQmtOZHR6RE0/view?usp=sharing Estimating Cell Growth with Machine Learning and Data Mining]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=108 2018-07-17T15:12:15Z

<p>Boni Al-Haruni: /* Day 29: Symposium */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;2017 Student Poster Presentations&#039;&#039;&#039;<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-WFNPZzd5TndqZ0U/view?usp=sharing Data Mining/ Machine Learning]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-S2xrUFM0ZEI3dGM/view?usp=sharing Electronic Health Records (EHR)]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-NEZ1YnQyVW0tREE/view?usp=sharing Genomics]<br /> *[https://drive.google.com/file/d/0B2ht_TCS6xC-cDVJNUtIcjRjcFE/view?usp=sharing Imaging]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/1zU2ygzYbF3R0V_fFjaOvHaUc15EF4QXF/view?usp=sharing DM - Estimating Cell Growth with Data Mining]<br /> *[https://drive.google.com/file/d/1hwOCAZqOJJmwNCjIT3gtMFOWrlLqBjal/view?usp=sharing DM - Microenvironment Microarray Spot Based Approach]<br /> *[https://drive.google.com/file/d/1pd7s2DaBp_NMLxv_afZc5fHl5nM9kA9L/view?usp=sharing EHR - A Time-To-Event Analysis of Heart Failure]<br /> *[https://drive.google.com/file/d/1Y1O5gPp_Xix7Ec7u66Z8onjbfATrQhVv/view?usp=sharing EHR - Visualizing Lab and Phenotype Associations] <br /> *[https://drive.google.com/file/d/12GxjFRO9vUlEa-XPpJeRI-xVusHWKM2X/view?usp=sharing EHR - Based Study on Long Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/1ajzjhjozNVgvDWq6TSFBCz-Cy2mPYh27/view?usp=sharing GEN - Classification of Cell Types from Peripheral Blood Cells]<br /> *[https://drive.google.com/file/d/1he4Rl-ue_YSDIkTNrJ4aGyt4vpVp2YC_/view?usp=sharing GEN - Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/1vJyV4ZshWyDce2YT8MFFshmKFSlNshcI/view?usp=sharing GEN - Genomome Storage and Assembly]<br /> *[https://drive.google.com/file/d/1Csd4Xv2Vl_wo-HIS7YxnN_mhu549Dye-/view?usp=sharing IMG - Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/19XsJs0bEU4VZ8LOj5XX4pTkfDV6PeNgI/view?usp=sharing IMG - Classifying Skin Lesion Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/1Mlce3h2_iPxmkOWEiQmrOtU3C5KeKorz/view?usp=sharing IMG - Melanoma Detection by Classifying Skin Lesion Images]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=107 2018-07-16T22:43:27Z

<p>Boni Al-Haruni: /* Readings */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> *[https://drive.google.com/file/d/1dvEdmapBY-jgdLOCZLdPwDgbybTWEni9/view?usp=sharing ARF Epidemiology] <br /> *[https://drive.google.com/file/d/1EzJxIVlXgkGGge20eHGC5HGtl-E7CPO_/view?usp=sharing CNN for Sentence Clarification]<br /> *[https://drive.google.com/file/d/1rdUGIYh7WkI4qbaJEQjaIXxaXtYYDvQN/view?usp=sharing Learning from Heterogenous Temporal Data]<br /> *[https://drive.google.com/file/d/12aIplGTH982iBvR7Kao6UBk2lY9Q3311/view?usp=sharing MIMC 3]<br /> *[https://drive.google.com/file/d/1jQVuZfnbrxzu79ujr_uKYQGvJVmkoJGy/view?usp=sharing MIMIC Benchmarks and Multitask RNN]<br /> *[https://drive.google.com/file/d/1uh5U_-3NIoUUM7aItA39iTGNkgwI01M7/view?usp=sharing RNNs for Multivariate Time Series]<br /> *[https://drive.google.com/file/d/1r1y4gez3o46mbqkaWP3umHJv6o6uvzf-/view?usp=sharing TREWScore for Septic Shock]<br /> *[https://drive.google.com/file/d/1EZnegIgxpmKNLorKwtkh8Veh5kIJu-lV/view?usp=sharing TREWScore Supplement]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/1zU2ygzYbF3R0V_fFjaOvHaUc15EF4QXF/view?usp=sharing DM - Estimating Cell Growth with Data Mining]<br /> *[https://drive.google.com/file/d/1hwOCAZqOJJmwNCjIT3gtMFOWrlLqBjal/view?usp=sharing DM - Microenvironment Microarray Spot Based Approach]<br /> *[https://drive.google.com/file/d/1pd7s2DaBp_NMLxv_afZc5fHl5nM9kA9L/view?usp=sharing EHR - A Time-To-Event Analysis of Heart Failure]<br /> *[https://drive.google.com/file/d/1Y1O5gPp_Xix7Ec7u66Z8onjbfATrQhVv/view?usp=sharing EHR - Visualizing Lab and Phenotype Associations] <br /> *[https://drive.google.com/file/d/12GxjFRO9vUlEa-XPpJeRI-xVusHWKM2X/view?usp=sharing EHR - Based Study on Long Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/1ajzjhjozNVgvDWq6TSFBCz-Cy2mPYh27/view?usp=sharing GEN - Classification of Cell Types from Peripheral Blood Cells]<br /> *[https://drive.google.com/file/d/1he4Rl-ue_YSDIkTNrJ4aGyt4vpVp2YC_/view?usp=sharing GEN - Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/1vJyV4ZshWyDce2YT8MFFshmKFSlNshcI/view?usp=sharing GEN - Genomome Storage and Assembly]<br /> *[https://drive.google.com/file/d/1Csd4Xv2Vl_wo-HIS7YxnN_mhu549Dye-/view?usp=sharing IMG - Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/19XsJs0bEU4VZ8LOj5XX4pTkfDV6PeNgI/view?usp=sharing IMG - Classifying Skin Lesion Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/1Mlce3h2_iPxmkOWEiQmrOtU3C5KeKorz/view?usp=sharing IMG - Melanoma Detection by Classifying Skin Lesion Images]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=106 2018-07-16T22:37:31Z

<p>Boni Al-Haruni: /* Machine Learning Group */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> ====Readings====<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/1zU2ygzYbF3R0V_fFjaOvHaUc15EF4QXF/view?usp=sharing DM - Estimating Cell Growth with Data Mining]<br /> *[https://drive.google.com/file/d/1hwOCAZqOJJmwNCjIT3gtMFOWrlLqBjal/view?usp=sharing DM - Microenvironment Microarray Spot Based Approach]<br /> *[https://drive.google.com/file/d/1pd7s2DaBp_NMLxv_afZc5fHl5nM9kA9L/view?usp=sharing EHR - A Time-To-Event Analysis of Heart Failure]<br /> *[https://drive.google.com/file/d/1Y1O5gPp_Xix7Ec7u66Z8onjbfATrQhVv/view?usp=sharing EHR - Visualizing Lab and Phenotype Associations] <br /> *[https://drive.google.com/file/d/12GxjFRO9vUlEa-XPpJeRI-xVusHWKM2X/view?usp=sharing EHR - Based Study on Long Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/1ajzjhjozNVgvDWq6TSFBCz-Cy2mPYh27/view?usp=sharing GEN - Classification of Cell Types from Peripheral Blood Cells]<br /> *[https://drive.google.com/file/d/1he4Rl-ue_YSDIkTNrJ4aGyt4vpVp2YC_/view?usp=sharing GEN - Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/1vJyV4ZshWyDce2YT8MFFshmKFSlNshcI/view?usp=sharing GEN - Genomome Storage and Assembly]<br /> *[https://drive.google.com/file/d/1Csd4Xv2Vl_wo-HIS7YxnN_mhu549Dye-/view?usp=sharing IMG - Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/19XsJs0bEU4VZ8LOj5XX4pTkfDV6PeNgI/view?usp=sharing IMG - Classifying Skin Lesion Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/1Mlce3h2_iPxmkOWEiQmrOtU3C5KeKorz/view?usp=sharing IMG - Melanoma Detection by Classifying Skin Lesion Images]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=105 2018-07-16T22:20:33Z

<p>Boni Al-Haruni: /* 2017 Symposium Reference Files */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Projects======<br /> *[https://drive.google.com/file/d/1zU2ygzYbF3R0V_fFjaOvHaUc15EF4QXF/view?usp=sharing DM - Estimating Cell Growth with Data Mining]<br /> *[https://drive.google.com/file/d/1hwOCAZqOJJmwNCjIT3gtMFOWrlLqBjal/view?usp=sharing DM - Microenvironment Microarray Spot Based Approach]<br /> *[https://drive.google.com/file/d/1pd7s2DaBp_NMLxv_afZc5fHl5nM9kA9L/view?usp=sharing EHR - A Time-To-Event Analysis of Heart Failure]<br /> *[https://drive.google.com/file/d/1Y1O5gPp_Xix7Ec7u66Z8onjbfATrQhVv/view?usp=sharing EHR - Visualizing Lab and Phenotype Associations] <br /> *[https://drive.google.com/file/d/12GxjFRO9vUlEa-XPpJeRI-xVusHWKM2X/view?usp=sharing EHR - Based Study on Long Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/1ajzjhjozNVgvDWq6TSFBCz-Cy2mPYh27/view?usp=sharing GEN - Classification of Cell Types from Peripheral Blood Cells]<br /> *[https://drive.google.com/file/d/1he4Rl-ue_YSDIkTNrJ4aGyt4vpVp2YC_/view?usp=sharing GEN - Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/1vJyV4ZshWyDce2YT8MFFshmKFSlNshcI/view?usp=sharing GEN - Genomome Storage and Assembly]<br /> *[https://drive.google.com/file/d/1Csd4Xv2Vl_wo-HIS7YxnN_mhu549Dye-/view?usp=sharing IMG - Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/19XsJs0bEU4VZ8LOj5XX4pTkfDV6PeNgI/view?usp=sharing IMG - Classifying Skin Lesion Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/1Mlce3h2_iPxmkOWEiQmrOtU3C5KeKorz/view?usp=sharing IMG - Melanoma Detection by Classifying Skin Lesion Images]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=104 2018-07-16T22:20:00Z

<p>Boni Al-Haruni: /* Day 29: Symposium */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> ======2017 Symposium Reference Files======<br /> *[https://drive.google.com/file/d/1zU2ygzYbF3R0V_fFjaOvHaUc15EF4QXF/view?usp=sharing DM - Estimating Cell Growth with Data Mining]<br /> *[https://drive.google.com/file/d/1hwOCAZqOJJmwNCjIT3gtMFOWrlLqBjal/view?usp=sharing DM - Microenvironment Microarray Spot Based Approach]<br /> *[https://drive.google.com/file/d/1pd7s2DaBp_NMLxv_afZc5fHl5nM9kA9L/view?usp=sharing EHR - A Time-To-Event Analysis of Heart Failure]<br /> *[https://drive.google.com/file/d/1Y1O5gPp_Xix7Ec7u66Z8onjbfATrQhVv/view?usp=sharing EHR - Visualizing Lab and Phenotype Associations] <br /> *[https://drive.google.com/file/d/12GxjFRO9vUlEa-XPpJeRI-xVusHWKM2X/view?usp=sharing EHR - Based Study on Long Term Infectious Diseases]<br /> *[https://drive.google.com/file/d/1ajzjhjozNVgvDWq6TSFBCz-Cy2mPYh27/view?usp=sharing GEN - Classification of Cell Types from Peripheral Blood Cells]<br /> *[https://drive.google.com/file/d/1he4Rl-ue_YSDIkTNrJ4aGyt4vpVp2YC_/view?usp=sharing GEN - Predicting the Transcriptome from the Genome]<br /> *[https://drive.google.com/file/d/1vJyV4ZshWyDce2YT8MFFshmKFSlNshcI/view?usp=sharing GEN - Genomome Storage and Assembly]<br /> *[https://drive.google.com/file/d/1Csd4Xv2Vl_wo-HIS7YxnN_mhu549Dye-/view?usp=sharing IMG - Machine Learning Classification of Skin Lesion Images]<br /> *[https://drive.google.com/file/d/19XsJs0bEU4VZ8LOj5XX4pTkfDV6PeNgI/view?usp=sharing IMG - Classifying Skin Lesion Images Using Adaptive Boosting]<br /> *[https://drive.google.com/file/d/1Mlce3h2_iPxmkOWEiQmrOtU3C5KeKorz/view?usp=sharing IMG - Melanoma Detection by Classifying Skin Lesion Images]<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=103 2018-07-16T22:09:42Z

<p>Boni Al-Haruni: /* Day 29: Symposium */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> =====2017 Symposium Reference Files=====<br /> *[https://drive.google.com/file/d/1zwuVp6_sIRIlKx79-i0uZRp6Gtooi6g8/view?usp=sharing 2017 Symposium Program]<br /> *[https://drive.google.com/file/d/18FfpzqxwPSunJfHM3pHDxYYggAPlKgWX/view?usp=sharing 2017 Symposium Flyer]<br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=102 2018-07-16T22:05:38Z

<p>Boni Al-Haruni: </p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> *[https://drive.google.com/file/d/19QJ9SmqsCP66urThKu5hlSxZdobyAd7z/view?usp=sharing 2018 Symposium Flyer]<br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=101 2018-07-16T21:52:33Z

<p>Boni Al-Haruni: /* Lecture Notes */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *[https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=100 2018-07-16T21:52:19Z

<p>Boni Al-Haruni: /* Machine Learning Group */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> ====Lecture Notes====<br /> *https://drive.google.com/file/d/1ogusN8iQqfEfmarjKUqKtFZaSX-LZw3k/view?usp=sharing Recurrent Neural Networks]<br /> *[https://drive.google.com/file/d/11sJeWngMmTpX_PWcobdxX180_xEzOfV-/view?usp=sharing Convolutional Neural Networks]<br /> *[https://drive.google.com/file/d/17m8Y5DcmJCeHgB1spA_b27WYJvzyhLi4/view?usp=sharing Deep Learning]<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=99 2018-07-16T21:48:13Z

<p>Boni Al-Haruni: </p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> <br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=98 2018-07-16T21:47:22Z

<p>Boni Al-Haruni: </p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> ====Research Lecture Slides ====<br /> *[https://drive.google.com/file/d/1HF9cD0cnBEShUVn2Lq9vQYpRxT2ZZ8DJ/view?usp=sharing Introduction]<br /> *[https://drive.google.com/file/d/1LdxCkiFDmWGHcBYsHUw_W54cM6RETp8T/view?usp=sharing Explore MIMIC]<br /> *[https://drive.google.com/file/d/15yChJcEgzHjrn_bhYF7wqaaLh5NMCkzA/view?usp=sharing Getting x and y]<br /> *[https://drive.google.com/file/d/17BCOb3-t5ZJ3eE0Yy9rjlOGn0cn36PUp/view?usp=sharing Some tips]<br /> *[https://drive.google.com/file/d/1T8PEwWfi7PA8uMnuA9_kF6BSz69A6VKM/view?usp=sharing Sample Pipeline]<br /> *[https://drive.google.com/file/d/1OBckV_yjuYrl36tOF1lAKiOcWJA8-q34/view?usp=sharing Training Pipleline]<br /> *[https://drive.google.com/file/d/1i1nel98HYV1mSpro5SaDoMdOqMH5i5Gr/view?usp=sharing CNN]<br /> *[https://drive.google.com/file/d/1y14n4kl9u4LBQ9M5AnP6knFZpfwgOUAW/view?usp=sharing LSTM]<br /> *[https://drive.google.com/file/d/1XF-P43lIhYXU0HnS0pyGrIvPzF4HiB0B/view?usp=sharing Structuring]<br /> *[https://drive.google.com/file/d/12HgspYuZAVVSU49c8AEs8FPqZyoF3c1E/view?usp=sharing Dataset and DataLoader]<br /> *[https://drive.google.com/file/d/1vnUj-Stf5arWNyLguCPuCm1OYRwZGGr1/view?usp=sharing pytorch models]<br /> *[https://drive.google.com/file/d/1-r9sC3GMH_qVL3SCsPBgkDh9upS3hfEM/view?usp=sharing Model Development]<br /> *[https://drive.google.com/file/d/1n2md6F3XQ85WOgMV_20G_DgFqmmBgU3k/view?usp=sharing Population]<br /> *[https://drive.google.com/file/d/1HEAWEbwP7R1o-UZ1NcrMp2C0Ub3ivAzK/view?usp=sharing Benchmark Features]<br /> *[https://drive.google.com/file/d/1QpFDYzmyQBvvT9tk4Nr7EYIbh8mMmMOr/view?usp=sharing Inclusion Exclusion]<br /> <br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=97 2018-07-16T21:35:17Z

<p>Boni Al-Haruni: /* Genomics Group */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> *[https://drive.google.com/file/d/1hFlCoxcw758XGfm_LrY6T9kuH6c0R6pJ/view?usp=sharing Intro Integrative]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=96 2018-07-16T21:24:36Z

<p>Boni Al-Haruni: /* Lectures */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> *[https://drive.google.com/file/d/1nZkKKbwgRWkfEeyEGzsueJ8Dh_Zjahpv/view?usp=sharing PopGen Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=95 2018-07-16T21:17:23Z

<p>Boni Al-Haruni: /* HTML Slides */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides]<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=94 2018-07-16T21:17:10Z

<p>Boni Al-Haruni: </p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> ====HTML Slides ====<br /> *[https://drive.google.com/file/d/1F-GsnlS4ipQvmOOgKua-KAaaMH1oE7pm/view?usp=sharing 6.19 Slides]<br /> *[https://drive.google.com/file/d/1Hw_lDLxsQFCjklGOlS3RSFDPX6Kn1r4A/view?usp=sharing 6.20 Slides]<br /> *[https://drive.google.com/file/d/16svlI9Hb90jaGt3TTKDRB6SvYEdbMl6w/view?usp=sharing 6.21 Slides]<br /> *[https://drive.google.com/file/d/1_1YKi48Gx2pO71OnuR9DFJQYDJHitA3j/view?usp=sharing 6.22 Slides<br /> *[https://drive.google.com/file/d/1zRW7VVTgpEoIIuiEzSa1MyJ_QtNC0GKA/view?usp=sharing 6.27 Slides]<br /> *[https://drive.google.com/file/d/170fTV11eeGP6oi6CTp-YESJFGcAKBJRl/view?usp=sharing 6.28 Slides]<br /> *[https://drive.google.com/file/d/1WHg5fZnFy0QFbM-tBkzo0BP4-2RR1I8K/view?usp=sharing 7.2 Slides]<br /> *[https://drive.google.com/file/d/1_Kg-Zjdb1uezb445pb8wZ1ty2JwN5Z3C/view?usp=sharing 7.9 Slides]<br /> *[https://drive.google.com/file/d/1Jgw2NgYbkY0U9gQc9dUl5BTcDUfXCX5o/view?usp=sharing 7.10 Slides]<br /> *[https://drive.google.com/file/d/1i3A8xI2bKjLE8ZrJHTm-CeWrGfSZo4iQ/view?usp=sharing 7.11 Slides]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 1]<br /> *[https://drive.google.com/file/d/1GfTMXiXriOJQhpIErcHejBR0xPPgxj9K/view?usp=sharing BDSI Classification 2]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=93 2018-07-16T13:49:08Z

<p>Boni Al-Haruni: /* Day 18: July 11 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> *[https://drive.google.com/file/d/1Ycn2inNz8vgl8WqlLvjl93dKh_G0gXec/view?usp=sharing Quinn Research Slides] - Quinn<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=92 2018-07-11T14:49:14Z

<p>Boni Al-Haruni: /* Week 4 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b5ddefb5-2e4f-4139-abff-a91800d6d08a Computing] - Sun<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=2cb79238-aeff-4e8c-890c-a91800f2fff6 Troubleshooting R] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=bacd91ab-2cc9-4695-a26a-a91900d8e1d2 Bayesian Data Analysis pt 1] - Chen<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=34af7429-ee17-4641-8be4-a91900f30839 Bayesian Data Analysis pt 2] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=91 2018-07-11T14:19:12Z

<p>Boni Al-Haruni: /* Week 4 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> *[https://drive.google.com/file/d/1rf01mdHYE7Yr_fuxVy-StcdUq8AkEL-P/view?usp=sharing Troubleshooting R] - Flickinger<br /> *[https://drive.google.com/file/d/1liiNZJNO-qlNgzUbYdgzASnJbpUfi9_C/view?usp=sharing Troubleshooting R code] - Flickinger<br /> ==== Day 17: July 10 ====<br /> *[https://drive.google.com/file/d/1Nk0uNN-7VDuXzIftHFpripcNNkAvEY0P/view?usp=sharing Bayesian Data Analysis] - Chen<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=90 2018-07-09T14:10:28Z

<p>Boni Al-Haruni: /* Day 15: July 6 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> *[https://drive.google.com/file/d/1Vrs7fAuqH8t3GHc8peDLlkL2MuPabKrX/view?usp=sharing Grad School Slides] - Kidwell<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=89 2018-07-09T14:09:19Z

<p>Boni Al-Haruni: /* Week 3 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> *[https://drive.google.com/file/d/1SsI4RNYAfCLSbI1vrwvm6WW6V8DfhvV3/view?usp=sharing Information Visualization 2 Slides] - Kay<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d1348177-aee8-4b8a-ab1b-a91400d78ef2 Information Visualization 2] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c70691f-4af6-4378-81e2-a91400e576d9 Information Visualization 2 Contd.] - Kay<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=dbdfc02a-fa2a-41d0-9f38-a91400f301c3 Bayesian Statistics 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=9f0b4930-ae0b-4b46-90ac-a91500d736b4 Grad School] - Kidwell<br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=88 2018-07-09T14:04:26Z

<p>Boni Al-Haruni: /* Day 14: July 5 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> *[https://drive.google.com/file/d/1mU0TRlGd_26eXJySxp3Q8K3ZNJXP4iKv/view?usp=sharing Bayes Slides 2] - Wen<br /> <br /> ==== Day 15: July 6 ====<br /> <br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=87 2018-07-09T14:03:42Z

<p>Boni Al-Haruni: /* Day 12: July 3 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> *[https://drive.google.com/file/d/13W4pfNnQ6bpKkauWbgAt5A2F0aEMDM5k/view?usp=sharing Bayes Slides] - Wen<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> <br /> ==== Day 15: July 6 ====<br /> <br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=86 2018-07-05T15:50:26Z

<p>Boni Al-Haruni: /* Day 12: July 3 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> *[https://drive.google.com/file/d/16EFWt1-YRVYZ-CPdjU1bBPdEOICgEqwz/view?usp=sharing Data Mining 2 Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> <br /> ==== Day 15: July 6 ====<br /> <br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=85 2018-07-05T15:49:17Z

<p>Boni Al-Haruni: /* Day 11: July 2 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining Slides] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> <br /> ==== Day 15: July 6 ====<br /> <br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=84 2018-07-05T15:49:05Z

<p>Boni Al-Haruni: /* Day 11: July 2 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> *[https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> <br /> ==== Day 15: July 6 ====<br /> <br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=83 2018-07-05T15:48:54Z

<p>Boni Al-Haruni: /* Day 11: July 2 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> *[https://drive.google.com/file/d/1pQUltPS9vOortgDoeJ-u-lMSv3Dg0o9H/view?usp=sharing Information Visualization Slides] - Kay<br /> https://drive.google.com/file/d/19eonASEWp3gRKiTH8x_NwbYluefaARED/view?usp=sharing Data Mining] - Najarian<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najarian<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> <br /> ==== Day 15: July 6 ====<br /> <br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=79 2018-07-05T14:11:57Z

<p>Boni Al-Haruni: </p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=523fba18-c518-4adb-8a33-a91100d68d51 Data Mining] - Najaran<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=624967a6-e082-4cb4-b762-a91100f3129c Information Visualization] - Kay<br /> <br /> ==== Day 12: July 3 ====<br /> =====Recorded Lectures=====<br /> *https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=d5e31bac-36a4-4fd0-9ea3-a91200d65459 Data Mining 2] - Najaran<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=b25cbf29-0c99-4923-8ff7-a91200f2ea45 Bayesian Statistics] - Wen<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> <br /> ==== Day 15: July 6 ====<br /> <br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]<br /> * [[https://drive.google.com/file/d/15pPcBQrTBj9ze9VthpTZLmkEa3yRaz8T/view?usp=sharing Daily Schedule]] - Last update July 3, 2018</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=77 2018-07-02T20:42:26Z

<p>Boni Al-Haruni: /* Day 10: June 29 */</p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *[https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> <br /> ==== Day 12: July 3 ====<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> <br /> ==== Day 15: July 6 ====<br /> <br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=76 2018-07-02T20:40:52Z

<p>Boni Al-Haruni: </p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> *[https://drive.google.com/file/d/1TJnGSuebCW53CPmeMa2LQbeum8mPZu61/view?usp=sharing Casual Interference Slides] - Zhenke Wu<br /> *[https://drive.google.com/file/d/1hj_Kkg3AnmgQktYOua5PcZNE0gb2ldGg/view?usp=sharing Clustering Part 2 Slides] - Danai Koutra<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> *[https://drive.google.com/file/d/1JcPNpmpy2pMEx4ZDGYrSw9D4OAHAZ2dR/view?usp=sharing R Loops Slides] - Flickinger<br /> *[https://drive.google.com/file/d/1MwFiZdbdsN5LunGuJengUIqW8DC9VNyt/view?usp=sharing dplyr NYC Flights]<br /> *[https://drive.google.com/file/d/16WAFuS6QZLMm3p_wxQR1QUWf8ilWjNB0/view?usp=sharing dplyr OCSLS]<br /> *https://drive.google.com/file/d/196bEVAtY7pI72UhY_i3BawtMel0zx13C/view?usp=sharing dplyr sms]<br /> *[https://drive.google.com/file/d/1VXohDZ2kVc_zsPaaP2ikTGJXx0oXmcnQ/view?usp=sharing ggplot MPG]<br /> *[https://drive.google.com/file/d/1ALpHsZE3OLSCssBSPmxLFEj0EYMMW90_/view?usp=sharing ggplot NYC Flights]<br /> *[https://drive.google.com/file/d/1BQdcx-nO9DuwTaGbh6j344HUwKh9uJKa/view?usp=sharing R Simulations] <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> <br /> ==== Day 12: July 3 ====<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> <br /> ==== Day 15: July 6 ====<br /> <br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=75 2018-07-02T20:28:10Z

<p>Boni Al-Haruni: </p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 10: June 29 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> <br /> ==== Day 12: July 3 ====<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> <br /> ==== Day 15: July 6 ====<br /> <br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=74 2018-07-02T20:27:12Z

<p>Boni Al-Haruni: </p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=a35972c1-e7f9-40ea-b0b0-a90b00f3c36b Model Selection Lecture Recording]<br /> <br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=4c2e8ad3-a066-4186-a5d8-a90d00f3ec3f Interference Lecture Recording] - Wu<br /> <br /> ==== Day 9: June 28 ====<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=fe2eaaf5-c6ed-49a2-81ed-a90e00d6637d Reading Like A Scientist] - Griffiths<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=c35e5178-7bde-4f0c-b626-a90e00f3cb3f R and Loops] - Flickinger<br /> <br /> ==== Day 10: June 29 ====<br /> <br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> <br /> ==== Day 12: July 3 ====<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> <br /> ==== Day 15: July 6 ====<br /> <br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]</div>

Boni Al-Haruni http://bigdatasummerinst.sph.umich.edu/wiki2018/index.php?title=Main_Page&diff=73 2018-06-28T14:48:45Z

<p>Boni Al-Haruni: </p> <hr /> <div>&lt;strong&gt;Welcome to the U-M Big Data Summer Institute 2018 Wiki!&lt;/strong&gt;<br /> <br /> Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User&#039;s Guide] for information on using the wiki software.<br /> <br /> == Reading Material ==<br /> <br /> === Data Mining Group ===<br /> <br /> ====Papers ====<br /> *[https://drive.google.com/file/d/1UqhVbAUzIdepGyMQBdkjb77kHdME0TL2/view?usp=sharing Data Instructions]<br /> <br /> === Machine Learning Group ===<br /> *[https://drive.google.com/open?id=19qcnGMIdoYZ9mvPwsU2kAvZcqArmd6oO BDSI Lecture]<br /> *[https://drive.google.com/open?id=1gZtk4LjLDcdUSBEsNZ1qTJ2UHRDL--JO Flux Guide]<br /> *[https://drive.google.com/open?id=1XDX7hkicATX0y7cVDb9PDCsPZo1gLdPi Python Guide]<br /> *[https://drive.google.com/open?id=1kueXa-kFk6DiKVqItTEL-sFT_xmHg9Fb Python Tutorial]<br /> <br /> === Genomics Group ===<br /> <br /> ===== Lectures =====<br /> *[https://drive.google.com/open?id=19jBLxGLRKtJD-5Id-H3d0AK0Vu_dfGko BDSI Genomics Intro]<br /> <br /> ===== Intro Exercises =====<br /> *[https://drive.google.com/open?id=1Wl1JensClieYfVNIcTWzJVxN_N7Tugte Single Cell Exercise]<br /> *[https://drive.google.com/open?id=18yGPNL0ZhxJR6Rya4K1IDnH1E8Yz6sjS Single Cell R Code]<br /> <br /> ===== Papers =====<br /> ====== Population Genetics ======<br /> *[https://drive.google.com/file/d/1UF6ADS9oc8zOh8R5zvuoRo72viYvMKoA/view?usp=sharing 1000 Genomes Project]<br /> *[https://drive.google.com/file/d/1ppsbWyfDzwoi_zA-9F6mt05YV3B3y173/view?usp=sharing Cavalli SforzaHGDP 2005]<br /> *[https://drive.google.com/file/d/1sULpGhl34Cn-TiDtctu78VnLR92oYVh6/view?usp=sharing LiHGDP 2008]<br /> *[https://drive.google.com/file/d/1NACFUWFfl9ojMl_R6fGOV-YvBbnJkjlb/view?usp=sharing NovembreNature 2008]<br /> ======Single Cell RNA ======<br /> *[https://drive.google.com/file/d/1Tzv1s58R0GVJBS0xYi2RiSYb4al25go_/view?usp=sharing Macosko_MouseRetinaDropSeq]<br /> *[https://drive.google.com/file/d/1vg15r6G7jrXSgZXOxsnWKFwbBQnzr8iB/view?usp=sharing Single cell makes big data]<br /> ======Transcriptomics ======<br /> *[https://drive.google.com/file/d/1SctF-SUft870PGg-43caqyN-B9sWxMh_/view?usp=sharing GamazonPrediXCan 2015]<br /> *[https://drive.google.com/file/d/1ioY2blWyZxDKonibl9baSXHAiUO2jNEU/view?usp=sharing GusevTWAS 2006]<br /> <br /> ==== Online videos to better understand genetics and genomics ====<br /> <br /> ===== &#039;&#039;Genetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=ubq4eu_TDFc&amp;list=PLF9969C74FAAD2BF9 Introduction to Genetics by 23andMe (5 videos)]<br /> * [https://www.youtube.com/watch?v=Mehz7tCxjSE TED-Ed : How Mendel&#039;s pea plants helped us understand genetics - Hortensia Jiménez Díaz]<br /> * [https://www.youtube.com/watch?v=TU44tR0hJ8A Genetic Recombination and Gene Mapping by Bozeman Science]<br /> * [https://www.youtube.com/user/UsefulGenetics/playlists Useful Genetics : A college-level comprehensive genetics course with 292 lectures offered by Rosie Redfield at UBC] <br /> <br /> ===== &#039;&#039;Useful 3D Animations&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=gG7uCskUOrA From DNA to protein - 3D Animation]<br /> * [https://www.youtube.com/watch?v=SMtWvDbfHLo DNA Transcription - 3D Animation]<br /> * [https://www.youtube.com/watch?v=aVgwr0QpYNE DNA splicing - 3D Animation]<br /> * [https://www.youtube.com/watch?v=TfYf_rPWUdY mRNA Translation - 3D Animation]<br /> * [https://www.youtube.com/watch?v=gbSIBhFwQ4s How DNA is packaged - 3D Animation]<br /> * [https://www.youtube.com/watch?v=J3HVVi2k2No The Central Dogma - 3D Animation]<br /> <br /> ===== &#039;&#039;Gene Regulation and Epigenetics&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=kp1bZEUgqVI Epigenetics Lecture by SciShow]<br /> * [https://www.youtube.com/watch?v=dES-ozV65u4 Hi-C Technique : A 3D map of the Human Genome]<br /> * [https://www.youtube.com/watch?v=TwXXgEz9o4w The ENCODE Project]<br /> * [https://www.youtube.com/watch?v=cK-OGB1_ELE RNAi by Nature Video]<br /> <br /> ===== &#039;&#039;Sequencing Technologies&#039;&#039; =====<br /> * [https://www.youtube.com/watch?v=AhsIF-cmoQQ TED-Ed : The race to sequence the human genome - Tien Nguyen]<br /> * [https://www.youtube.com/watch?v=vL7ptq2Dcf0 DropSeq - Droplet-based Single Cell Sequencing by McCarroll Lab]<br /> <br /> === Imaging Group ===<br /> *[https://drive.google.com/open?id=1FspYcn_B93e1BVQ6Q2QZxGygADd1khD7 Project Description]<br /> *[https://drive.google.com/open?id=1-5F8sTNcoarpDFhLhyt7ETjx6BKqsokW BDSI Imaging R Tutorial]<br /> *[https://drive.google.com/open?id=1Fikr9tXih99FRlNhktWvqi2XQfePRlmJ Imaging R Code]<br /> <br /> ====Papers====<br /> *[https://drive.google.com/file/d/1rs5SLylP-GwjYxzyUy5W5XmUJuDRZWj4/view?usp=sharing Intro to Radiomics]<br /> *[https://drive.google.com/file/d/14I7vrN_Ag9YR2zhDf9d8kKXs94IWNLy7/view?usp=sharing Skin Imaging]<br /> <br /> == 2018 Presentations ==<br /> <br /> === &lt;u&gt;Week 1&lt;/u&gt; ===<br /> ==== Day 0: June 17 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRAZFnG_Ypla2ZBim39VZ__T33ck6uwBGy_eGqQR3pmpp0dDPCqFlx597N7nGC9pqvnw8Vsgg3y9T91/pub?start=false&amp;loop=false&amp;delayms=60000 Orientation Slides 2018] - Bhramar Mukherjee, PhD<br /> <br /> ==== Day 1: June 18 ====<br /> *[https://docs.google.com/presentation/d/e/2PACX-1vRQckVN89cMdtjnjaS7_FJ7BJFYvQIHvgUSXw2OTEhRtu56EZ2s9VSgq0I46Dmi7ryfXVmug5a2beLJ/pub?start=false&amp;loop=false&amp;delayms=60000 Welcome Slides 2018] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1JCdOhE7NhhzjPi7ouqEA-ta81TbQBbWW/view?usp=sharing Training for Responsible Conduct in Research] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1XhTTNyZR_egX4SyPc14E252FB9xTUQ6D/view?usp=sharing BDSIOrientationSupplement] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1c5ZLytCDbUJ85wracUY5x9x8Xe1cztYW/view?usp=sharing BDSI Event Presentation] - Robert Peng<br /> *[https://drive.google.com/file/d/1362WGLqQJ8mn5HhMmYVpRvqyLfd4XpjS/view?usp=sharing BDSI Life in Ann Arbor] - Stephen Salermo<br /> *[https://drive.google.com/file/d/1LL0_i9jjjSQdIxe-NvWdk_z0MTaesbFJ/view?usp=sharing Al-Marzouki_s05] - The effect of scientific misconduct on the results of clinical trials: A Delphi survey<br /> *[https://drive.google.com/open?id=1I5sMZBIzijzlvi3Xj13WTuS9AzVpa0Sf baggerlycoombes] - Deriving chemosensitivity from cell lines: forensic bioinformatics and reproducible research in high-throughput biology<br /> *[https://drive.google.com/file/d/1YLUlWXPM4w8cqFROmoUj9npt2dJqb8za/view?usp=sharing ethicalguidelines] Ethical Guidelines for Statistical Practice<br /> *[https://drive.google.com/file/d/1Zue_3Lh-RGAwF6EImm-nHC_7oX8KfwlM/view?usp=sharing ODS] - On being a scientist 2009<br /> *[https://drive.google.com/open?id=1i-sktSXggJAeHcKrSSEYGArEJmzle1_Y breiman] - Statistical Modeling: The Two Cultures<br /> *[https://drive.google.com/file/d/1BYU00G8x5U4OW2Qhq6gRLQFSZ8ZYOt11/view?usp=sharing breimaninterview] - A conversation with Leo Breiman<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=7c7f99dc-7179-4420-a583-a903014b92c3 Klemmer Evening Lecture]<br /> <br /> ==== Day 2: June 19 ====<br /> *[https://drive.google.com/open?id=1o3HfK3V1V3zoUxzKwEx9d0h_fGAIiP1D Study design and inference. ] - Roderick Little, PhD<br /> *[https://drive.google.com/open?id=1XMYhAs8WnxhC4vb7u1Eup4aWh0N-1pH1 Reproducible Research - Jedidiah Carlson]<br /> *[https://drive.google.com/open?id=1vWCGrLCYETLlA3Z_91QLHPtr1b1tmnBq Data Processing] - Jed Carlson<br /> *[https://drive.google.com/file/d/1u0uqMh8I8d7BomHSgKxiGwgnk3PE_aDB/view?usp=sharing cameronpaulingpnas1976] - Supplemental ascorbate in the supportive treatment of cancer: Prolongation of survival times in terminal human cancer.<br /> *[https://drive.google.com/file/d/1ICwXElGosi-at-kxP36nS7Vd0Z3XKQU3/view?usp=sharing comroe1977] - Experimental studies designed to evaluate the management of patients with incurable cancer<br /> *[https://drive.google.com/file/d/1qKKeiQkZQel20OQK-ejhcbpmV8wqwl0E/view?usp=sharing CREAGAN] - Failure of High-Dose Vitamin C therapy to benefit patients with advanced cancer<br /> *[https://drive.google.com/file/d/1IuaVOmt24Sb_OPOfedRz26FOUdakEYzQ/view?usp=sharing neyman34jrss] - On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection<br /> <br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=142b0ba1-795a-4d9c-9c50-a90400d9f85a Reproducible Research] - J. Carlson<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17e02d6f-b195-4370-a354-a90400f37ff9 Study design and Inference] - R. Little<br /> <br /> ==== Day 3: June 20 ====<br /> *[https://drive.google.com/open?id=1OVsi449OGgrKqlnOBBsApizpg9gul-9H Observational Data] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1K5UHDWDv_UyhuYUmt-wYtk6LiLT2mmiB/view?usp=sharing castnejm1989] - Preliminary report<br /> *[https://drive.google.com/file/d/1LvFT7OcgPQKdQoqZuH2LPN-if0Mj-BM8/view?usp=sharing Tocainideahj80] - Prophylaxis of ventricular tachyarrythmias<br /> *[https://drive.google.com/file/d/1Xdxds2fQgebLgauzI_Mfvc2tsZrDimHa/view?usp=sharing wakefieldlancet] - Ileal-lymphoid-nodular hyperplasia, non-specific colitis, and pervasive developmental disorder in children<br /> *[https://drive.google.com/open?id=17gGeKY7lj0nE9Z5rVSS1xTgVbKzhV2HH R intro file] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1x56tLgsucEp8fZdCyGoZKx2AJiC9cheY R intro Lecture] - Matthew Flickinger<br /> *[https://drive.google.com/open?id=1Lsf3XverXb20zv8uuJiYdGh2qAc04HwZ Linear Algebra] - Klemmer<br /> *[https://drive.google.com/open?id=1AvMWjfQMaDPBe90tLElJqyIEqMQkFXFN Matrix Algebra Lecture] - Klemmer<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=564ba8aa-7e11-4acb-9acc-a90500f3b197 Big Data pt. 2] - Roderick Little, PhD<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=72425167-56ed-4016-a0a3-a905014b2154 Linear Algebra] - Klemmer<br /> <br /> ==== Day 4: June 21 ====<br /> *[https://drive.google.com/file/d/1iihBno6cnaKJD_jy1hZjW55HAZGR-7jz/view?usp=sharing Linear Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/open?id=1N4DVT3RQfnlWpdLrYs9NyK3bcaQepwqv Logistic Regression Slides] - Matthew Zawistowski<br /> *[https://drive.google.com/file/d/1Is4wRzwpi9qjEgdRLaaiH5pnqAJV952s/view?usp=sharing R dplyr Slides] - Matthew Flickinger<br /> *[https://drive.google.com/file/d/1U_djfdZ1l4Ladh7flByTJt0yBKj2_OBp/view?usp=sharing dplyr R code] - Flickinger<br /> *[https://drive.google.com/file/d/1JajnEQi5V366UYMhHZu9O_Btt9miz0G5/view?usp=sharing dplyr R Flights] - Flickinger<br /> *[https://drive.google.com/file/d/1ytD46IcZbBwZNAORxK_6dbqsDZ_JM7O3/view?usp=sharing dplyr OCSLS] - Flickinger<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=17b825db-efc1-4062-8fd4-a90600d75981 dplyr] - Matthew Flickinger<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=f86c1be8-32ba-427b-82e6-a90600f41994 Logistic Regression] - Matthew Zawistowski<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=e7d5c8c2-5774-46e9-a39e-a906014c1cc4 Linear Regression] - Matthew Zawistowski<br /> <br /> ====Day 5: June 22 ====<br /> *[https://drive.google.com/file/d/1zPvY7rTxaZtO4qNazEqM8UD4I3k-r0gS/view?usp=sharing State of Institute Slides] - Bhramar Mukherjee, PhD<br /> *[https://drive.google.com/file/d/1Zf0yIVFTESB1NokCKrAPZRqZ65BeZHiE/view?usp=sharing Big Data 3 Slides] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/11LnfEnT2po2SLJmodkaQfyrM8vUnjJPf/view?usp=sharing ggPlot 2 Slides] - Matthew Flickinger, PhD<br /> *[https://drive.google.com/file/d/1riMRVCd5_hQQRlGr4F6PkR8L2JIWG25t/view?usp=sharing Dplyr_Sms]<br /> *[https://drive.google.com/file/d/15Qy8K-r1KmpU8elEMIY4a0SUCaOdyo8G/view?usp=sharing ggplot2]<br /> *[https://drive.google.com/open?id=11bv6vYqV7NugbRP6668By2F_GB0SRmiX Parameter Estimation] - Roderick Little, PhD<br /> *[https://drive.google.com/file/d/1AxwIOpI9h0iIcJvSJ0mQ7qxt1YTvGjEr/view?usp=sharing Fisher22philtransa] - On the Mathematical Foundations of Theoretical Statistics<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=3af6f347-406f-4d8b-9c0b-a90700f2f700 Parameter Estimation] - Rod Little<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=45312fc9-60b5-41ca-935c-a907011267a4 Journey Lecture] - Sanchez<br /> <br /> === &lt;u&gt;Week 2&lt;/u&gt; ===<br /> ==== Day 6: June 25 ====<br /> *[https://drive.google.com/file/d/1FBj8Uet0cJ02aMP6MHWvFeOuA2bkim4j/view?usp=sharing Matrix Computations] - Peisong Han<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection] - Lauren Beesley<br /> *[https://drive.google.com/open?id=145d1lrONgCGX-CO_sx0o1hj5P4CMxg7o Python Lecture 1] - Max Smith<br /> *[https://drive.google.com/file/d/1DUZRkidMf9qhH5pfomY7POcsDrkZ7n8L/view?usp=sharing Python Notebook 1] - Max Smith<br /> =====Recorded Lectures=====<br /> *[https://sph.hosted.panopto.com/Panopto/Pages/Viewer.aspx?id=61694d5a-30a4-41d3-81bc-a90a00d60405 Matrix Computations] - Han<br /> <br /> ==== Day 7: June 26 ====<br /> *[https://drive.google.com/file/d/11cgzTqWhq4-voT1zBIMjS2XvGbMFgQR6/view?usp=sharing Model Selection II] - Lauren Beesley<br /> *[https://drive.google.com/open?id=11LzWvnANtEtKASP0IsDYUuuQw4zhi8WD Machine Learning] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1yyRBiZrI5itTNmPdQBXR66wjC7sEwHzL/view?usp=sharing Python Lecture 2] - Max Smith<br /> *[https://drive.google.com/file/d/1Uk7woOZ-Kyq2nkfNoLxjvG1iB8dnULUb/view?usp=sharing Python Notebook 2] - Max Smith<br /> <br /> ==== Day 8: June 27 ====<br /> *[https://drive.google.com/open?id=1byHN_lXS7FCiLl-qMqjd6HQlsUFVdKo2 Clustering] - Danai Koutra<br /> *[https://drive.google.com/open?id=1z-TFLyWuQ6KqHFk5YZf59ystG6WPzgP2 Machine Learning II] - Jenna Wiens<br /> *[https://drive.google.com/file/d/1vi5ChOdY49GFL4YKWgf1uEztZpx4an5r/view?usp=sharing Python Lecture 3] - Max Smith<br /> *[https://drive.google.com/file/d/1sBh6yue4tQyQYEyJGZgYymCRLLDyCMLE/view?usp=sharing Python Notebook 3] - Max Smith<br /> <br /> ==== Day 9: June 28 ====<br /> <br /> ==== Day 10: June 29 ====<br /> <br /> <br /> === &lt;u&gt;Week 3&lt;/u&gt; ===<br /> ==== Day 11: July 2 ====<br /> <br /> ==== Day 12: July 3 ====<br /> <br /> ==== Day 13: July 4 (NO CLASS) ====<br /> <br /> ==== Day 14: July 5 ====<br /> <br /> ==== Day 15: July 6 ====<br /> <br /> <br /> === &lt;u&gt;Week 4&lt;/u&gt; ===<br /> ==== Day 16: July 9 ====<br /> <br /> ==== Day 17: July 10 ====<br /> <br /> ==== Day 18: July 11 ====<br /> <br /> ==== Day 19: July 12 ====<br /> <br /> ==== Day 20: July 13 ====<br /> <br /> <br /> === &lt;u&gt;Week 5&lt;/u&gt; ===<br /> ==== Day 21: July 16 ====<br /> <br /> ==== Day 22: July 17 ====<br /> <br /> ==== Day 23: July 18 ====<br /> <br /> ==== Day 24: July 19 ====<br /> <br /> ==== Day 25: July 20 ====<br /> <br /> === &lt;u&gt;Week 6&lt;/u&gt; ===<br /> ==== Day 26: July 23 ====<br /> <br /> ==== Day 27: July 24 ====<br /> <br /> ==== Day 28: July 25 ====<br /> <br /> == Day 29: Symposium ==<br /> <br /> &#039;&#039;&#039;Student Poster Presentations&#039;&#039;&#039;<br /> <br /> == Additional Resources ==<br /> * [[DataCamp Resources]]</div>

Boni Al-Haruni