Supervised machine learning for population genetics: a new paradigm
As population genomic datasets grow in size, researchers are faced with the daunting task
of making sense of a flood of information. To keep pace with this explosion of data …
of making sense of a flood of information. To keep pace with this explosion of data …
Effects of selection at linked sites on patterns of genetic variability
B Charlesworth, JD Jensen - Annual review of ecology …, 2021 - annualreviews.org
Patterns of variation and evolution at a given site in a genome can be strongly influenced by
the effects of selection at genetically linked sites. In particular, the recombination rates of …
the effects of selection at genetically linked sites. In particular, the recombination rates of …
Going global by adapting local: A review of recent human adaptation
The spread of modern humans across the globe has led to genetic adaptations to diverse
local environments. Recent developments in genomic technologies, statistical analyses, and …
local environments. Recent developments in genomic technologies, statistical analyses, and …
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 …
population genetic models is often infeasible. To circumvent this problem, we introduce a …
The unreasonable effectiveness of convolutional neural networks in population genetic inference
Population-scale genomic data sets have given researchers incredible amounts of
information from which to infer evolutionary histories. Concomitant with this flood of data …
information from which to infer evolutionary histories. Concomitant with this flood of data …
Using neutral, selected, and hitchhiker loci to assess connectivity of marine populations in the genomic era
Estimating the rate of exchange of individuals among populations is a central concern to
evolutionary ecology and its applications to conservation and management. For instance …
evolutionary ecology and its applications to conservation and management. For instance …
Soft sweeps and beyond: understanding the patterns and probabilities of selection footprints under rapid adaptation
The tempo and mode of adaptive evolution determine how natural selection shapes patterns
of genetic diversity in DNA polymorphism data. While slow mutation‐limited adaptation …
of genetic diversity in DNA polymorphism data. While slow mutation‐limited adaptation …
Soft sweeps are the dominant mode of adaptation in the human genome
The degree to which adaptation in recent human evolution shapes genetic variation remains
controversial. This is in part due to the limited evidence in humans for classic “hard selective …
controversial. This is in part due to the limited evidence in humans for classic “hard selective …
S/HIC: robust identification of soft and hard sweeps using machine learning
Detecting the targets of adaptive natural selection from whole genome sequencing data is a
central problem for population genetics. However, to date most methods have shown sub …
central problem for population genetics. However, to date most methods have shown sub …
[PDF][PDF] Predicting the landscape of recombination using deep learning
Accurately inferring the genome-wide landscape of recombination rates in natural
populations is a central aim in genomics, as patterns of linkage influence everything from …
populations is a central aim in genomics, as patterns of linkage influence everything from …