A mutation rate model at the basepair resolution identifies the mutagenic effect of polymerase III transcription
De novo mutations occur at substantially different rates depending on genomic location,
sequence context and DNA strand. The success of methods to estimate selection intensity …
sequence context and DNA strand. The success of methods to estimate selection intensity …
Scaling the discrete-time Wright–Fisher model to biobank-scale datasets
Abstract The discrete-time Wright–Fisher (DTWF) model and its diffusion limit are central to
population genetics. These models can describe the forward-in-time evolution of allele …
population genetics. These models can describe the forward-in-time evolution of allele …
NeMu: a comprehensive pipeline for accurate reconstruction of neutral mutation spectra from evolutionary data
The recognized importance of mutational spectra in molecular evolution is yet to be fully
exploited beyond human cancer studies and model organisms. The wealth of intraspecific …
exploited beyond human cancer studies and model organisms. The wealth of intraspecific …
Latent mutations in the ancestries of alleles under selection
WTL Fan, J Wakeley - Theoretical Population Biology, 2024 - Elsevier
We consider a single genetic locus with two alleles A 1 and A 2 in a large haploid
population. The locus is subject to selection and two-way, or recurrent, mutation. Assuming …
population. The locus is subject to selection and two-way, or recurrent, mutation. Assuming …
The effect of mutation subtypes on the allele frequency spectrum and population genetics inference
Population genetics has adapted as technological advances in next-generation sequencing
have resulted in an exponential increase of genetic data. A common approach to efficiently …
have resulted in an exponential increase of genetic data. A common approach to efficiently …
Statistical and Machine Learning Methods for the Analysis of Summary Statistics Derived from Large Genomic Datasets
K Liao - 2023 - deepblue.lib.umich.edu
Advancements in DNA sequencing over the past decade have transformed our ability to
characterize genetic variation in large populations and study the genetics of many complex …
characterize genetic variation in large populations and study the genetics of many complex …
[PDF][PDF] PROBABILITY OF TREE CHANGES IN THE ANCESTRAL RECOMBINATION GRAPH
E AXINN - math.indiana.edu
We study the Ancestral Recombination Graph (ARG) and the Sequentially Markov
Coalescent'(SMC'). We first recall the algorithms of the ARG and SMC', providing concise …
Coalescent'(SMC'). We first recall the algorithms of the ARG and SMC', providing concise …