MIT CompBio Lecture 09 - Epigenomics II (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:
Epigenomics (continued from lecture 8):
5. Learning chromatin states jointly across cell types
- stacking vs. concatenation vs. independent learning
6. Epigenome imputation
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3D genome:
1. Methods for studying nuclear genome organization
- Measuring locus-landmark interactions: ChIP, DamID
- Measuring locus-locus interactions: 3C, 4C, 5C, Hi-C, ChIA-PET
2. Processing and normalization of Hi-C datasets
- Correcting for biases and issues with Hi-C data
- Normalization, sources of bias and bias correction
3. Interpretation of data and functional characterization
- Lamina Associated Domains (LADs)
- Topologically Associated Domains (TADs) and other compartments
4. Conservation of nuclear genome organization
- Across species, across cell types
- Sequence basis for conservation?
5. Towards a mechanistic understanding
- Nuclear genome organization through the (single) cell cycle
- (Limitations of) 3D modeling of nuclear genome organization
- Loop extrusion as a potential mechanism for nuclear organization

Видео MIT CompBio Lecture 09 - Epigenomics II (Fall '19) канала Manolis Kellis