Computer Programming in Systems Biology and Bioinformatics
BSR6803.05 Pharmacology and Systems Biology of Disease and Therapeutics CMC
(customized mini-course)

Course Director: Avi Ma'ayan PhD
E-mail: avi.maayan@mssm.edu

The course meets at 12-34 IMI from 4:00-5:30PM every Tuesday for 10 weeks

Course Description:
This mini course covers computer programming methodologies applied to processing data and analysis of data in the broad fields of Bioinformatics and Systems Biology. Topics covered would include an overview of data structures and algorithms, Python scripting for processing text files, computational platforms such as R and MATLAB as well as web technologies using JavaScript, HTML, XML, PHP, SQL, MySql, and CGI. Students will be required to complete small programming assignments throughout the course

Course Schedule Spring 2012


Date
Topic
Assignment
2/21 Mutual Information and Decision Trees Decision Tree Classifier
2/28 MATLAB Programming M-file assignment
3/6 Data Structures Linked list program
3/13 Python Programming Interactive web-page
3/20 Database Systems Creating a database
3/27 Web Programming Interactive web-page
4/3 GSEA GSEA in R
4/10 PCA PCA in R
4/17 PubMed E-utils, AERS, GeneRIF, OMIM Final project
4/24 Final Project Q & A
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