Manolis Kellis
@manoliskellis1·24.9K subscribers·255 videos
MIT CompBio Lecture 08 - Epigenomics I (Fall '19)
Posted
October 1, 2019
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October 1, 2019
3,520
56
1
1.62%
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1:11:44Now PlayingMIT Computational Biology: Genomes, Networks, Evolution, Health
Prof. Manolis Kellis
Full playlist with all videos in order is here
All slides from Fall 2019 are here
Outline for this lecture:
1. Introduction to Epigenomics
- Overview of epigenomics, Diversity of Chromatin modifications
- Antibodies, ChIP-Seq, data generation projects, raw data
2. Primary data processing: Read mapping, Peak calling
- Read mapping: Hashing, Suffix Trees, Burrows-Wheeler Transform
- Quality Control, Cross-correlation, Peak calling, IDR (similar to FDR)
3. Discovery and characterization of chromatin states
- A multi-variate HMM for chromatin combinatorics
- Promoter, transcribed, intergenic, repressed, repetitive states
4. Model complexity: selecting the number of states/marks
- Selecting the number of states, selecting number of marks
- Capturing dependencies and state-conditional mark independence
(to be continued in Lecture 09)
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