6.047/6.878 Computational Biology - Genomes, Networks, Evolution
Fall 2011
Instructor: Manolis Kellis
TA: Melissa A Gymrek
Lecture: TR9.30-11 (4-159)
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, population genomics, disease association, personal genomics. 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.
Announcements
Final Presentations - Addendum
Hi everyone,Sorry for the multiple announcements, please upload your slides onto stellar by *8:00AM* tomorrow morning at the latest. Instructions on formatting your slides can be found in the Final Project Report instructions.
~Melissa
Announced on 12 December 2011 5:47 p.m. by Melissa A Gymrek
Final Presentations Schedule - *IMPORANT: ROOM CHANGES*
Hi everyone,Below is the final schedule for tomorrow's presentations. IMPORTANT: Note that the room will be the regular classroom for the morning presentations, and in 32D-507 for the afternoon. Note that you are required to attend during the regular class period, and attendance is very strongly encouraged for the other presentations as well.
See you tomorrow!
~Melissa and Manolis
Tuesday Dec 13 9:05am-10:55am: 4-159 (Regular Classroom)
9:05a: Anna Shcherbina
9:17: Sarah Spencer
9:29: Sajith Wickramasekara and David Ku
9:41: Manasi Vartak and Max Wolf
9:53: Thomas Willems
10:05: Stretch break! :-)
10:07: Lawson Wong
10:19: Abhishek Sarkar
10:31: Kelly Brock and Boyang Zhao
10:43: Megan Roytman and Chrisantha Perera
Tuesday Dec 13 4:05pm-5:30pm: 32D-507 (Stata Center, Dreyfus
Tower, 5th floor)
4:05p: Meriem and Gabriel
4:17p: Asa Adadey
4:29p: Deniz Yorukoglu
4:41p: Maria Rodriguez and Alex Chernyakhovsky
4:53p: Leonardo Urbina and Lana Awad
5:05p: Stretch Break!
5:07p: Mark and Arvind
5:19p: Yarden Katz
5:31: Akashnil Dutta
5:43: Derrick Sund
Announced on 12 December 2011 5:37 p.m. by Melissa A Gymrek
Announcements/project presentations
Hi everyone,Below are several announcements regarding the remainder of the course:
1. Final presentations will be Tuesday, December 13, from 9-11
and 4-5:30 in 32G-882. Sign up for a slot on the wiki at http://6047.wikispaces.com/FinalPresentations
Please come to as many presentations as you can. Attendance is
*required* for those during the regular class period. While we
realize you might have obligations during the time slots not during
the class period, please be supportive of all of your
classmates' hard work this semester and come hear what
they've been doing!
2. We have the last lecture this Thursday. It will be an exciting lecture by Professor George Church from Harvard about the Personal Genome Project, so please take a short break from working on your projects to attend!
3. Projected project scores were out of 5 points.
4. All pset grades/comments are now updated on stellar.
Have a fun last week of the class, and good luck preparing your
final projects!
~Melissa
Announced on 07 December 2011 4:49 p.m. by Melissa A Gymrek
Project office hours addendum: free food!
Rumor has it there is some leftover free food in 32G-8882. Come, enjoy, and chat about projects!Announced on 30 November 2011 4:28 p.m. by Melissa A Gymrek
Project office hours
Hi everyone,Just a reminder that we are having project office hours from 4-6pm up at 32G-882. Feel free to come by and ask any questions you have about your projects.
Cheers,
~Melissa
Announced on 30 November 2011 4:12 p.m. by Melissa A Gymrek
