Statistical Inference in the Wright–Fisher Model Using Allele Frequency Data

TY - JOUR

T1 - Statistical Inference in the Wright–Fisher Model Using Allele Frequency Data

AU - Tataru, Paula

AU - Simonsen, Maria

AU - Bataillon, Thomas

AU - Hobolth, Asger

PY - 2017

Y1 - 2017

N2 - TheWright-Fisher model provides an elegant mathematical framework for understanding allele frequency data. In particular, the model can be used to infer the demographic history of species and identify loci under selection. A crucial quantity for inference under the Wright-Fisher model is the distribution of allele frequencies (DAF). Despite the apparent simplicity of the model, the calculation of the DAF is challenging. We review and discuss strategies for approximating the DAF, and howthese are used in methods that performinference from allele frequency data. Various evolutionary forces can be incorporated in the Wright-Fisher model, and we consider these in turn. We begin our review with the basic bi-allelic Wright-Fisher model where random genetic drift is the only evolutionary force. We then consider mutation, migration, and selection. In particular, we compare diffusion-based and moment-based methods in terms of accuracy, computational efficiency, and analytical tractability.We conclude with a brief overview of the multi-allelic process with a general mutation model.

AB - TheWright-Fisher model provides an elegant mathematical framework for understanding allele frequency data. In particular, the model can be used to infer the demographic history of species and identify loci under selection. A crucial quantity for inference under the Wright-Fisher model is the distribution of allele frequencies (DAF). Despite the apparent simplicity of the model, the calculation of the DAF is challenging. We review and discuss strategies for approximating the DAF, and howthese are used in methods that performinference from allele frequency data. Various evolutionary forces can be incorporated in the Wright-Fisher model, and we consider these in turn. We begin our review with the basic bi-allelic Wright-Fisher model where random genetic drift is the only evolutionary force. We then consider mutation, migration, and selection. In particular, we compare diffusion-based and moment-based methods in terms of accuracy, computational efficiency, and analytical tractability.We conclude with a brief overview of the multi-allelic process with a general mutation model.

KW - Allele frequency

KW - Diffusion

KW - Inference

KW - Moments

KW - Selection

KW - Wright-Fisher

UR - http://www.scopus.com/inward/record.url?scp=85014333599&partnerID=8YFLogxK

U2 - 10.1093/sysbio/syw056

DO - 10.1093/sysbio/syw056

M3 - Journal article

C2 - 28173553

SN - 1063-5157

VL - 66

SP - e30-e46

JO - Systematic Biology

JF - Systematic Biology

IS - 1

ER -