CS 626 - COMPUTATIONAL MOLECULAR BIOLOGY

2003 Spring  -  T/R 2: 55-4:05 Upson 205

Lecturer: Ron Elber, ron@cs.cornell.edu , 5-7416,

Walk-in-time M 10-11; W 10-11, R 9-10; F 2-3

Grade: 70% three projects; 30% take-home final (24 hours)

There is no single textbook. Detailed handouts will be provided.

 

On Tuesday April 22 Paul Chew will give a guest lecture on

"The consensus structures of protein families"

 

Syllabus

Chapter 1

Chapter 2

Chapter 3

overlap structures

trees

Project I

BLOSUM50

project II

sequences for project II

probability matrix for project II

Side Chain Modeling

atomically detailed energy functions

project III

molecular dynamics

Global Optimization & Protein folding (updated)

A sample for a final examination (last year exame)

 

Useful MatLab code by Leonid Meyerguz:

 pos2sym.m pprintAlignment.m readScoreMatrix.m sym2pos.m

 

Appendix 1