6.047/6.878 Class Home

6.047/6.878 Computational Biology: Genomes, Networks, Evolution, Health

Fall 2018

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Instructor: Manolis Kellis

TAs: Taylor J Herr, Khoi Thien Nguyen, Anna Sappington, Maxim Y Wolf

Lecture: TR1-2.30 (32-141)

Information:

Covers the computational foundations and research frontiers of computational biology. Advanced algorithmic techniques for rapid genome analysis and interpretation, data integration, epigenomics, comparative genomics, regulatory genomics, single-cell biology, deep learning, bayesian networks, pattern finding, and dissecting diseaes mechanisms.

Genomes: Biological sequence analysis, hidden Markov models, gene finding, comparative genomics, RNA structure, sequence alignment, hashing.

Networks: Gene expression, clustering/classification, EM/Gibbs sampling, motifs, Bayesian networks, Deep Learning, Epigenomics, Single-cell Genomics.

Evolution: Gene/species trees, phylogenomics, coalescent, personal genomics, population genomics, human ancestry, recent selection, disease mapping.

Health: Genetic association mapping, common/rare variants, GWAS, PheWAS, multi-trait mapping, causality/mediation, EHR mining, cancer genomics, CRISPR.

In addition to the technical material in the course, the term project provides practical experience (1) writing an NIH-style research proposal, (2) reviewing peer proposals, (3) planning and carrying out independent research, (4) presenting research results orally in a conference setting, and (5) writing results in a journal-style scientific paper.

Announcements

Additional office hours

Our second regular office hours will be Thursdays 10-11am in the Stata D5 lounge, starting tomorrow.

We weren't able to find a time that worked for all students, so if you have conflicts with both office hours, you can email the TA's with questions and/or to schedule a meeting.

Announced on 12 September 2018 4:17 p.m. by Khoi Thien Nguyen

Lecture 2 today will be a video lecture

Dear all, Unfortunately, my connection flight from ECCB will not get back in Boston on time for lecture today, so I have instead recorded the lecture over video, and posted it online in the class materials [Under Video Recordings]. I will be there in person on Thursday, and will review the material briefly so you can ask any questions. Please make sure to view the video, either in class today (we will project it), or anytime before Thursday class. Thank you, and sorry for not being there today! Manolis

Announced on 11 September 2018 4:57 a.m. by Manolis Kellis

Recitation notes, slides updated

Slides and notes for yesterday's recitation are now posted, with some edits motivated by your feedback yesterday.

Announced on 08 September 2018 11:10 a.m. by Khoi Thien Nguyen

Recitation today 9/7

Hi class,

There will be recitation today 9/7 at 3pm, in 4-237. See you there!

Announced on 07 September 2018 9:10 a.m. by Khoi Thien Nguyen

Updates on homework, office hours

The first p-set is available on Stellar now, due 9/24. All p-sets will be due Mondays at 11:59pm (as stated on the course agenda).

Office hours:
I will still hold office hours 5:30-6:30 on Tuesdays, since Tuesday was the best day on the pre-course survey.
If that's not a good time for you, please fill out this survey to determine another hour that will work for the class.
https://www.when2meet.com/?7063886-zTgGG

Sorry about any confusion today!

Announced on 06 September 2018 3:56 p.m. by Khoi Thien Nguyen

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