The age of a mutation in a general coalescent tree

DOI10.1080/15326349808807471MaRDI QIDQ4385221zbMATH OpenOpenAlexWikidataFDO

Authors Simon Tavaré, Robert Griffiths

Publication date 25 May 1998

Published in Communications in Statistics. Stochastic Models (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1080/15326349808807471

zbMATH Keywords

age of mutationcoalescent processinfinitely-many-sites modelmutationspopulation geneticssample of DNA

Mathematics Subject Classification ID

Applications of branching processes (60J85) Genetics and epigenetics (92D10) Problems related to evolution (92D15)

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Cited in

(59)

• Allelic frequencies given the sample's common ancestral type
• Ages of mutations on a coalescent tree
• On the genealogy of a rare allele
• Rare alleles and selection.
• The ages of mutations in gene trees
• Conditional genealogies and the age of a neutral mutant
• On the genealogy of a sample of neutral rare alleles.
• Conditional ancestral times and related properties of an extant mutant at a locus A given the number of segregating sites observed at a linked locus B
• The Wright-Fisher site frequency spectrum as a perturbation of the coalescent's
• Genealogical properties of subsamples in highly fecund populations
• The stationary distribution of a sample from the Wright-Fisher diffusion model with general small mutation rates
• Coalescence times for three genes provide sufficient information to distinguish population structure from population size changes
• Forward and backward evolutionary processes and allele frequency spectrum in a cancer cell population
• Computing the joint distribution of the total tree length across loci in populations with variable size
• Single and simultaneous binary mergers in Wright-Fisher genealogies
• Population genetics of neutral mutations in exponentially growing cancer cell populations
• An accurate approximation for the expected site frequency spectrum in a Galton-Watson process under an infinite sites mutation model
• The transition distribution of a sample from a Wright-Fisher diffusion with general small mutation rates
• Sparse moments of univariate step functions and allele frequency spectra
• Variances and covariances of linear summary statistics of segregating sites
• Developments in coalescent theory from single loci to chromosomes
• Statistical inference for the evolutionary history of cancer genomes
• An analytical framework in the general coalescent tree setting for analyzing polymorphisms created by two mutations
• The joint allele frequency spectrum of multiple populations: a coalescent theory approach
• The non-equilibrium allele frequency spectrum in a Poisson random field framework
• The frequency spectrum of a mutation, and its age, in a general diffusion model
• Correcting for ascertainment biases when analyzing SNP data: applications to the estimation of linkage disequilibrium
• Within a sample from a population, the distribution of the number of descendants of a subsample's most recent common ancestor
• Ewens' sampling formula and related formulae: combinatorial proofs, extensions to variable population size and applications to ages of alleles
• Genealogical histories in structured populations
• The star-shaped -coalescent and Fleming-Viot process
• Genetic drift in populations governed by a Galton-Watson branching process
• The allelic partition for coalescent point processes
• The effect of recurrent mutation on the frequency spectrum of a segregating site and the age of an allele
• Random walk Green kernels in the neutral Moran model conditioned on survivors at a random time to origin
• Descartes' rule of signs and the identifiability of population demographic models from genomic variation data
• Efficiently inferring the demographic history of many populations with allele count data
• Coalescent lineage distributions
• Analytical results on the neutral non-equilibrium allele frequency spectrum based on diffusion theory
• Analytical results on the neutral non-equilibrium allele frequency spectrum based on diffusion theory
• Inference from gene trees in a subdivided population
• Times on trees, and the age of an allele
• Correction
• A coalescent process with simultaneous multiple mergers for approximating the gene genealogies of many marine organisms
• The genealogy, site frequency spectrum and ages of two nested mutant alleles
• Site frequency spectra from genomic SNP surveys
• The site-frequency spectrum of linked sites
• The TMRCA of general genealogies in populations with deterministically varying size
• A matrix-analytical sampling formula for time-homogeneous coalescent processes under the infinite sites mutation model
• Exact calculation of the expected SFS in structured populations
• The expected sample allele frequencies from populations of changing size via orthogonal polynomials
• Ancestral inference from haplotypes and mutations
• Some properties of the conditioned reconstructed process with Bernoulli sampling
• An efficient algorithm for generating the internal branches of a Kingman coalescent
• Theory and applications of a deterministic approximation to the coalescent model
• A note on distributions of times to coalescence, under time-dependent population size
• Gene mapping via the ancestral recombination graph
• Non-equilibrium theory of the allele frequency spectrum
• An approximate sampling formula under genetic hitchhiking

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