MIT CompBio Lecture 08 - Epigenomics I (Fall '19)

MIT Computational Biology: Genomes, Networks, Evolution, Health
http://compbio.mit.edu/6.047/
Prof. Manolis Kellis

Full playlist with all videos in order is here: https://www.youtube.com/playlist?list=PLypiXJdtIca6U5uQOCHjP9Op3gpa177fK

All slides from Fall 2019 are here: https://stellar.mit.edu/S/course/6/fa19/6.047/materials.html

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)

Видео MIT CompBio Lecture 08 - Epigenomics I (Fall '19) канала Manolis Kellis