[HTML][HTML] The molecular genetics of crop domestication

JF Doebley, BS Gaut, BD Smith - Cell, 2006 - cell.com
Ten thousand years ago human societies around the globe began to transition from hunting
and gathering to agriculture. By 4000 years ago, ancient peoples had completed the …

Linkage disequilibrium—understanding the evolutionary past and map** the medical future

M Slatkin - Nature Reviews Genetics, 2008 - nature.com
Linkage disequilibrium—the nonrandom association of alleles at different loci—is a sensitive
indicator of the population genetic forces that structure a genome. Because of the explosive …

Efficient ancestry and mutation simulation with msprime 1.0

F Baumdicker, G Bisschop, D Goldstein, G Gower… - Genetics, 2022 - academic.oup.com
Stochastic simulation is a key tool in population genetics, since the models involved are
often analytically intractable and simulation is usually the only way of obtaining ground-truth …

Approximate Bayesian computation (ABC) in practice

K Csilléry, MGB Blum, OE Gaggiotti… - Trends in ecology & …, 2010 - cell.com
Understanding the forces that influence natural variation within and among populations has
been a major objective of evolutionary biologists for decades. Motivated by the growth in …

Approximate Bayesian computation in evolution and ecology

MA Beaumont - Annual review of ecology, evolution, and …, 2010 - annualreviews.org
In the past 10years a statistical technique, approximate Bayesian computation (ABC), has
been developed that can be used to infer parameters and choose between models in the …

Sequential monte carlo without likelihoods

SA Sisson, Y Fan, MM Tanaka - Proceedings of the …, 2007 - National Acad Sciences
Recent new methods in Bayesian simulation have provided ways of evaluating posterior
distributions in the presence of analytically or computationally intractable likelihood …

Recent Selective Sweeps in North American Drosophila melanogaster Show Signatures of Soft Sweeps

NR Garud, PW Messer, EO Buzbas, DA Petrov - PLoS genetics, 2015 - journals.plos.org
Adaptation from standing genetic variation or recurrent de novo mutation in large
populations should commonly generate soft rather than hard selective sweeps. In contrast to …

Combining population genomics and quantitative genetics: finding the genes underlying ecologically important traits

JR Stinchcombe, HE Hoekstra - Heredity, 2008 - nature.com
A central challenge in evolutionary biology is to identify genes underlying ecologically
important traits and describe the fitness consequences of naturally occurring variation at …

Using genomic data to infer historic population dynamics of nonmodel organisms

AC Beichman, E Huerta-Sanchez… - Annual Review of …, 2018 - annualreviews.org
Genome sequence data are now being routinely obtained from many nonmodel organisms.
These data contain a wealth of information about the demographic history of the populations …

Deep learning for population genetic inference

S Sheehan, YS Song - PLoS computational biology, 2016 - journals.plos.org
Given genomic variation data from multiple individuals, computing the likelihood of complex
population genetic models is often infeasible. To circumvent this problem, we introduce a …