6.895/6.095 Computational Biology: Genomes, Networks, Evolution
Fall 2005
Professors: Manolis Kellis, Piotr Indyk
TA: Pouya Kheradpour
Lecture:
TR11-12.30
(3-370)
Recitation: F4:30-5:30
(34-303)
Information:
 BLAST algorithm visualization for rapid string
search |
 Protein interaction network of the yeast S.
cerevisiae
|
 Evidence of whole-genome duplication in fish |
Covers the algorithmic and machine learning foundations of computational biology, combining theory with practice. We study the principles of algorithm design for biological datasets, and analyze influential problems and techniques. We use these to analyze real datasets from large-scale studies in genomics and proteomics.
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Genomes: Biological sequence analysis, hidden Markov models, gene finding, RNA folding, sequence alignment, genome assembly.
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Networks: Gene expression analysis, regulatory motifs, graph algorithms, scale-free networks, network motifs, network evolution.
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Evolution: Comparative genomics, phylogenetics, genome duplication, genome rearrangements, evolutionary theory, rapid evolution.
Announcements
Final Presentation Schedule
Final presentations will be given on December 8th and 13th (one ~20min presentation per group). If you would prefer to present on the 8th, please let me know as soon as possible. Otherwise, we will be randomly assigning you to a day and will let you know the schedule soon.Announced on 01 December 2005 6:45 p.m. by Pouya Kheradpour
No recitation tomorrow
No recitation will be held tomorrow. Unless there is a demand, there will probably not be any more recitations for the remainder of the semester.Announced on 01 December 2005 6:44 p.m. by Pouya Kheradpour
No Recitation, Project Proposals
In light of the holiday, there will be no recitation or office hours tomorrow (Friday). I will hold office hours at 4pm on Monday and be available by email.You should email your project proposals to me (pouyak@mit.edu) by 8pm on Monday. Only send one email per group (if you are working with a partner). You should still hand in a hard copy of the remainder of your assignment.
Announced on 11 November 2005 9:14 a.m. by Pouya Kheradpour
Midterm Review Session
A review session will be held on Wednesday (tomorrow) at 4:15pm in 32-G575 (the theory lounge).The session will be question-answer, so bring questions.
Also, recitation will be canceled this Friday.
Announced on 25 October 2005 3:15 p.m. by Pouya Kheradpour
Problem Set 2 Extension
The due date for Problem Set 2 has been extended to Wednesday, October 12 at 8pm.Announced on 03 October 2005 12:39 p.m. by Pouya Kheradpour
