Bollback, Jonathan PIST Austria ; York, Thomas L; Nielsen, Rasmus
We develop a new method for estimating effective population sizes, Ne, and selection coefficients, s, from time-series data of allele frequencies sampled from a single diallelic locus. The method is based on calculating transition probabilities, using a numerical solution of the diffusion process, and assuming independent binomial sampling from this diffusion process at each time point. We apply the method in two example applications. First, we estimate selection coefficients acting on the CCR5-Δ32 mutation on the basis of published samples of contemporary and ancient human DNA. We show that the data are compatible with the assumption of s = 0, although moderate amounts of selection acting on this mutation cannot be excluded. In our second example, we estimate the selection coefficient acting on a mutation segregating in an experimental phage population. We show that the selection coefficient acting on this mutation is ~0.43.
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Bollback JP, York T, Nielsen R. Estimation of 2Nes From Temporal Allele Frequency Data. Genetics. 2008;179(1):497-502. doi:10.1534/genetics.107.085019
Bollback, J. P., York, T., & Nielsen, R. (2008). Estimation of 2Nes From Temporal Allele Frequency Data. Genetics. Genetics Society of America. https://doi.org/10.1534/genetics.107.085019
Bollback, Jonathan P, Thomas York, and Rasmus Nielsen. “Estimation of 2Nes From Temporal Allele Frequency Data.” Genetics. Genetics Society of America, 2008. https://doi.org/10.1534/genetics.107.085019.
J. P. Bollback, T. York, and R. Nielsen, “Estimation of 2Nes From Temporal Allele Frequency Data,” Genetics, vol. 179, no. 1. Genetics Society of America, pp. 497–502, 2008.
Bollback JP, York T, Nielsen R. 2008. Estimation of 2Nes From Temporal Allele Frequency Data. Genetics. 179(1), 497–502.
Bollback, Jonathan P., et al. “Estimation of 2Nes From Temporal Allele Frequency Data.” Genetics, vol. 179, no. 1, Genetics Society of America, 2008, pp. 497–502, doi:10.1534/genetics.107.085019.
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