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Author Archives: Arun Sethuraman
Shared patterns of genomic diversity across populations of distantly related taxa
Genomic diversity is shaped by the complex interplay between the effects of genetic drift and natural selection among populations. Several of these effects, especially those of linked selection at neutral sites, adaptive introgression, and barriers to migration (often called “genomic … Continue reading
Unbalanced population sampling and STRUCTURE
The utility and intuition offered by the program STRUCTURE, and more generally, the ‘admixture’ model of Pritchard et al. (2000) are unquestioned – with tens of thousands of citations, it retains its lead among the most popular population genetics software. … Continue reading
Posted in bioinformatics, genomics, howto, methods, population genetics, software, STRUCTURE
Tagged gene flow, methods, population structure
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Divergence and Linked Background Selection
We have widely discussed the reduction in neutral diversity due to demography and linked selection effects (e.g. selective sweeps and hitchhiking, or background selection) in several previous posts (e.g see here, here, and here). However, how linked selection affects neutral divergence … Continue reading
Posted in evolution, genomics, methods, selection, speciation, theory
Tagged ecological speciation, Evolution, genomics, Homo sapiens, natural selection, population genetics
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On (mis)interpreting STRUCTURE/ADMIXTURE results
STRUCTURE, ADMIXTURE and other similar software are among the most cited programs in modern population genomics. They are algorithms that estimate allele frequencies and admixture proportions under the premise that sampled genotypes are derived from one of “K” ancestral populations, … Continue reading
Live from #Evol2016 – highlights from Sunday and what to see on Monday June 20th
Day two was just as eventful – lots of exciting talks, getting some in-between-talk-fitness in sprinting through the aisles (only to be wrecked by deep fried macaroni and cheese balls at the poster session), and schmoozing with the who’s who in … Continue reading
The Great Migration and African-American Genomic History
Over 45 million African-Americans share a recent common history largely shaped by “The Great Migration” (1910-1970) from out of the Southern United States. And yet, the admixture history of the African-American community, and its consequences for public health are little … Continue reading
Posted in genomics, population genetics, United States
Tagged Evolution, gene flow, Illumina, NGS, population genetics, population structure
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Ice-Age Euro-trips
Recent works that attempt to get at human migrations inside Europe paint a complex portrait of migratory events, admixture with archaic hominids, and adaptive evolution to new geographies, and a changing global climate. Analyzing whole genomes of 51 ancient humans … Continue reading
What does the island fox say?
Small populations are characterized by large drift and reduced efficacy of selection effects, which result in fixation of both advantageous and deleterious alleles, accumulation of homozygosity, and often reduction in population fitness. What with plummeting mammal populations across biota, understanding … Continue reading
Posted in adaptation, evolution, genomics, mutation, natural history, population genetics, selection
Tagged Evolution, genomics, natural selection, population genetics
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Sweeps and Demographic Inference
Population genetics presents us with numerous conundrums – several of which have to do with how the same genomic disposition can be “reached” over evolutionary time with multiple alternate demographic or selective processes. I have discussed several of these issues … Continue reading
Posted in bioinformatics, evolution, genomics, population genetics, selection, theory
Tagged gene flow, genomics, natural selection, population genetics
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