GSBS Student Publications

Title

Recent Progress in Polymorphism-Based Population Genetic Inference

Student Author(s)

Jessica Crisci; Angela Bean; Alfred Simkin

GSBS Program

Bioinformatics & Computational Biology

Publication Date

2012-3

UMMS Affiliation

Program in Bioinformatics and Integrative Biology

Document Type

Article

Disciplines

Computational Biology | Evolution | Other Genetics and Genomics | Population Biology

Abstract

The recent availability of whole-genome sequencing data affords tremendous power for statistical inference. With this, there has been great interest in the development of polymorphism-based approaches for the estimation of population genetic parameters. These approaches seek to estimate, for example, recently fixed or sweeping beneficial mutations, the rate of recurrent positive selection, the distribution of selection coefficients, and the demographic history of the population. Yet despite estimating similar parameters using similar data sets, results between methodologies are far from consistent. We here summarize the current state of the field, compare existing approaches, and attempt to reconcile emerging discrepancies. We also discuss the biases in selection estimators introduced by ignoring the demographic history of the population, discuss the biases in demographic estimators introduced by assuming neutrality, and highlight the important challenge to the field of achieving a true joint estimation procedure to circumvent these confounding effects.

Keywords

Bayesian statistics, demography, likelihood estimation, positive selection

DOI of Published Version

10.1093/jhered/esr128

Source

Crisci JL, Poh YP, Bean A, Simkin A, Jensen JD. Recent Progress in Polymorphism-Based Population Genetic Inference. J Hered. (March-April 2012) 103(2):287-296. doi: 10.1093/jhered/esr128

Journal/Book/Conference Title

Journal of Heredity

Related Resources

Link to article in PubMed

PubMed ID

22246406

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