7.91J / 7.36J / 20.490J Foundations of Computational and Systems Biology

Spring 2004

Gibbs Sampler - Strong Motif example.
Gibbs Sampler - Strong Motif example. (Figure by Prof. Chris Burge.)

Course Highlights

The MIT Initiative in Computational and Systems Biology (CSBi) is a campus-wide research and education program that links biology, engineering, and computer science in a multidisciplinary approach to the systematic analysis and modeling of complex biological phenomena. This course is one of a series of core subjects offered through the CSB Ph.D program, for students with an interest in interdisciplinary training and research in the area of computational and systems biology.

This course site includes an extensive listing of bioinformatics tools with links to online resources in the tools section as well as a full set of lecture notes.

Course Description

Serving as an introduction to computational biology, this course emphasizes the fundamentals of nucleic acid and protein sequence analysis, structural analysis, and the analysis of complex biological systems. The principles and methods used for sequence alignment, motif finding, structural modeling, structure prediction, and network modeling are covered. Students are also exposed to currently emerging research areas in the fields of computational and systems biology.

Technical Requirements

MATLAB® software is required to run the .m files found on this course site. RasMol software or another molecular graphics program (e.g. DeepView, PyMol) is required to view the .pdb files found on this course site. Any number of biological sequence comparison software tools can be used to import the FASTA formatted sequence (.fa) files found on this course site. Use the Python Interpreter to run the .py files found on this course site. Media player software, such as QuickTime® PlayerRealOne™ Player, or Windows Media® Player, is required to run the .avi files found on this course site.


*Some translations represent previous versions of courses.

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Staff

Instructors:
Prof. Christopher Burge
Prof. Amy Keating
Prof. Michael Yaffe
Dr. Peter Woolf 

Course Meeting Times

Lectures:
Two sessions / week
1.5 hours / session

Recitations:
Two sessions / week
1 hour / session

Level

Undergraduate / Graduate

*Translations