Estimation of population allele frequencies from small samples containing multiple generations

Konovalov, Dmitry A., and Heg, Dik (2008) Estimation of population allele frequencies from small samples containing multiple generations. In: Proceedings of 6th Asia-Pacific Bioinformatics Conference , pp. 321-331. From: 6th Asia-Pacific Bioinformatics Conference, 14-17 January 2008, Kyoto, Japan.

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Abstract

Estimations of population genetic parameters like allele frequencies, heterozygosities, inbreeding coefficients and genetic distances rely on the assumption that all sampled genotypes come from a randomly interbreeding population or sub-population. Here we show that small cross-generational samples may severely affect estimates of allele frequencies, when a small number of progenies dominate the next generation or the sample. A new estimator of allele frequencies is developed for such cases when the kin structure of the focal sample is unknown and has to be assessed simultaneously. Using Monte Carlo simulations it was demonstrated that the new estimator delivered significant improvement over the conventional allele counting estimator.

Item ID: 7834
Item Type: Conference Item (Refereed Research Paper - E1)
Keywords: relatedness; genetic markers
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ISBN: 978-1-84816-108-5
Date Deposited: 10 May 2010 00:59
FoR Codes: 01 MATHEMATICAL SCIENCES > 0104 Statistics > 010401 Applied Statistics @ 50%
06 BIOLOGICAL SCIENCES > 0604 Genetics > 060412 Quantitative Genetics (incl Disease and Trait Mapping Genetics) @ 50%
SEO Codes: 89 INFORMATION AND COMMUNICATION SERVICES > 8902 Computer Software and Services > 890299 Computer Software and Services not elsewhere classified @ 100%
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