Course Director: Aik Choon Tan, Ph.D.

Class: Friday 8am - 10am
Venue: RC1S 10th Floor Conference Room

Course Syllabus

1. INTRODUCTION TO BIOMEDICAL DATA SCIENCE - 8/31/18
   • [SLIDES]

   • [One of a Kind - The New Yorker]

   • [Data Scientist: The Sexiest Job of the 21st Century]

   • Eric Topol's talk [Video]

   • BD2K Fundamentals of Data Science Videos [LINK]

   
   
2. BIOMEDICAL DATA SOURCES AND INTEGRATION - 9/7/18
   • [SLIDES]

   • Euan Ashley's talk [Video]

   • Stephen Friend's talk [Video]

   • Atul Butte's talk [Video]

   
   
3. DATA MINING AND ANALYTICS - 9/14/18

   • [SLIDES]

   • Deep Learning Review:

   • LeCun Y, Bengio Y, Hinton G. (2015). Deep Learning. Nature, 521: 436-444.

   • Primers for Machine Learning:

   • Kingsfor C, Salzberg SL. (2008). What are decision trees? Nat Biotech 26:1011-1013.

   • Krogh A. (2008). What are artificial neural networks? Nat Biotech 26: 195-197.

   • Noble WS. (2006). What is a support vector machine? Nat Biotech 24: 1565-1567.

   • TensorFlow: [LINK]

   • Playground of Tensorflow [LINK]

   • Jun Wang's talk [Video]

   • Jun Wang's article in the MIT Tech Review

   • MIT Technology Review (Nov/Dec 2017) - The AI Issue [Read Issue]

   
   
4. DATA MINING AND ANALYTICS II - 9/21/18
   • [SLIDES]

   • Netflix Challenge - AT&T Lab

   • Peter Norvig, Google: [Video]

   • Justin Ko, Stanford: [Video]

   
   
5. GUEST LECTURE - Clinical Informatics - MINING ELECTRONIC HEALTH RECORDS - Michael Ames, Associate Director, COMPASS - 9/28/18
   
   
6. GUEST LECTURE - MINING CLINICAL DATA IN VA HEALTH SYSTEMS - Thomas Glorioso, Senior Data Scientist, VA - 10/5/18
   
   
7. GUEST LECTURE - DATA & METHODS REPRODUCIBILITY - Wladimir Labeikovsky, Bioinformationist, HSC Library - 10/12/18
   
   
8. DATA VISUALIZATION - 10/19/18
   • [SLIDES]

   • Nature Methods - Special Issue on Visualizing Biological Data

   • D3 script
   
   
9. GUEST LECTURE - INTRODUCTION TO BIOMEDICAL TEXT MINING - Dr. Kevin Cohen, Group Leader, Dept. Pharmacology - 11/2/18
   
   
10. DATA REPURPOSING AND CONCLUSIONS - 11/9/18
    
    
11. FINAL - 11/16/18