Julius B. Lucks/Meetings and Notes/SMBE2007/methods population genetics
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Monty Slatkin : The conditional allele frequency spectrum
Wed Jun 27 09:56:11 EDT 2007
- w/ Svante Pavo
Words to Look Up
- allele frequency spectrum
- Gegenbauer polynomials
- Fesenstein's law - 'Everything that is true is obvious.'
Talk
- summarize large amount polymorphic sequence data from species
- sample N chromosomes - f_i density of sites i at which i chromosomes carry derived allele
- consider allele freq spectrum in light of dna sequence of closely-related species
- neanderthal and human
- whether neanderthal carriers derived allele or ancestral allele
- use chimpanzee as an outgroup to decide which is derived and which ancestral
- use Kimura's diffusion equation on 2 branches - look at joint spectrum
- assumes randomly mating population
- in case where have derived allele in neanderthal
- freq spectrum in species 1 is uniform - indep of pop size and history of pop sizes
- separated for longer-longer periods - more independant distributions
- when sample single chrom of neanderthal - as if sampled single chrom from humans
