Manolis Kellis
@manoliskellis1·24.9K subscribers·255 videos
MIT CompBio Lecture 20 - Phylogenomics (Fall 2019)
Posted
November 14, 2019
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2,177
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November 14, 2019
2,177
39
1
1.84%
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1:22:44Now 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. Reconciliation: Mapping gene trees to species trees
- Inferring orthologs/paralogs, gene duplication and loss
- Reconciliation: problem, examples, MPR (max parsimony)
2. Phylogenomics: Gene/species tree reconstruction
- Species tree: supermatrix, supertree, min MPR cost
- Gene tree: tree scaling and learning, generative model
3. Evolution in populations: Models and algorithms
- Wright-Fischer (Fw), Coalescent (Bw), Multi-Species Coal.
- Coalescent times distribution, coalescent simulations
4. Incomplete lineage sorting: blend pop/species models
- Using ILS: species tree, divergence times, population sizes
- Dealing with ILS: Unified model: allele-locus-species tree
- Deal w/ recombination: Ancestral recombination graphs (ARGs)
5. Evolution of Evolutionary Theory: Modern Synthesis
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