7.90J / 6.874J Computational Functional Genomics

Spring 2005

Diagrams of the genetic transcription process.

Three steps in the transcription of protein-coding genes. (Image by Prof. David Gifford.)

Course Highlights

This course features a complete set of lecture notes.

Course Description

The course focuses on casting contemporary problems in systems biology and functional genomics in computational terms and providing appropriate tools and methods to solve them. Topics include genome structure and function, transcriptional regulation, and stem cell biology in particular; measurement technologies such as microarrays (expression, protein-DNA interactions, chromatin structure); statistical data analysis, predictive and causal inference, and experiment design. The emphasis is on coupling problem structures (biological questions) with appropriate computational approaches.

Technical Requirements

Any number of biological sequence comparison software tools can be used to import the FASTA formatted sequence (.fa) files found on this course site. MATLAB® software is required to view and run the .m and .mat files found on this course site. Postscript viewer software, such as Ghostscript/Ghostview, can be used to view the .ps files found on this course site. File decompression software, such as Winzip® or StuffIt®, is required to open the .zip files found on this course site.

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Prof. David Gifford
Prof. Tommi Jaakkola

Course Meeting Times

Two sessions / week
1.5 hours / session