6.047/6.878 Class Home

6.047/6.878 Computational Biology: Genomes, Networks, Evolution

Fall 2010

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Instructor: Manolis Kellis

TA: Matthew D Edwards

Lecture: TR9.30-11 (4-159)
Recitation: F1-2 (36-156)

Information:

Covers the algorithmic and machine learning foundations of computational biology, combining theory with practice. Principles of algorithm design, influential problems and techniques, and analysis of large-scale biological datasets. Topics include (a) genomes: sequence analysis, gene finding, RNA folding, genome alignment and assembly, database search; (b) networks: gene expression analysis, regulatory motifs, biological network analysis; (c) evolution: comparative genomics, phylogenetics, genome duplication, genome rearrangements, evolutionary theory. These are coupled with fundamental algorithmic techniques including: dynamic programming, hashing, Gibbs sampling, expectation maximization, hidden Markov models, stochastic context-free grammars, graph clustering, dimensionality reduction, Bayesian networks.

OCW archive available

Announcements

Lecture Video/Audio/Slides/Scribe collection

All teaching materials from this term are now linked here: compbio.mit.edu/teaching.html#compbioF10

Announced on 04 January 2011 9:16 a.m. by Manolis Kellis

HKN evaluations extension

Good news, HKN extended our deadline for another few days.
So please take a moment to fill out the survey at:
https://sixweb.mit.edu/student/evaluate/6.047-f2010
It's open until Dec 25th. Thanks! Manolis

PS: Look out for Science, Nature, and Genome Research this Wednesday at ~1pm, the modENCODE papers are coming out!

Announced on 19 December 2010 10:39 a.m. by Manolis Kellis

Happy holidays!

Quick end-of-term notes, which we hope you reads admist loved ones:

(1) Only 9 of 35 students have so far filled out the evaluation, so please take a moment to do so before midnight at: https://sixweb.mit.edu/student/evaluate/6.047-f2010
(there were some problems last week with the survey, which HKN has now fixed, so you may have to fill it out again, sorry!)

(2) The final grades have now been posted to the registrar. Congratulations to all for a job well done!

(3) We were very impressed with your final projects, and we hope many of you will continue on to successful careers in computational biology.

(4) You can find a listing of other courses in computational biology here: http://web.mit.edu/manoli/www/teaching.html#compbio

(5) You can find EECS faculty working in Genomes, Networks, and Evolution here: http://www.eecs.mit.edu/bioeecs/CompGenProt.html

With all our best wishes for the holidays,
Manolis & Matt

Announced on 18 December 2010 7:51 p.m. by Manolis Kellis

Course evaluations

Please fill out the course evaluations here:

https://sixweb.mit.edu/student/evaluate/6.047-f2010

It will be the same link regardless of your registration status (6.047 or 6.878).

Thanks for your feedback! It will help improve the course in the future.

Announced on 15 December 2010 10:50 p.m. by Matthew D Edwards

Scoring peer projects

You've already experience evaluating peer proposals, and even a 'grant' review panel. Now's the time to serve as an NIH program manager, evaluating the work that your grantees accomplished over the past 5 years (aka. 10 short weeks). Here's a simple rubric that you can use to follow along the projects with us, scribble your thoughts, and even jot down scores to help you remember the projects you were most excited about.

http://stellar.mit.edu/S/course/6/fa10/6.047/courseMaterial/topics/topic2/resource/ProjectScoring/ProjectScoring.pdf

And if nothing else, it will perhaps help take your mind away from stressing about your own presentation while waiting.
Looking forward to seeing your presentations tomorrow!
Manolis

Announced on 09 December 2010 4:16 a.m. by Manolis Kellis

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