| Title: | Identity-by-descent-based estimation of the X chromosome effective population size with application to sex-specific demographic history |
| Journal: | G3: Genes, Genomes, Genetics |
| Published: | 27 Jul 2023 |
| Pubmed: | https://pubmed.ncbi.nlm.nih.gov/37497617/ |
| DOI: | https://doi.org/10.1093/g3journal/jkad165 |
| URL: | https://academic.oup.com/g3journal/article-pdf/13/10/jkad165/51821965/jkad165.pdf |
| Citations: | 6 (6 in last 2 years) as of 8 Aug 2024 |
Publication 7712
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Abstract
The effective size of a population (Ne) in the recent past can be estimated through analysis of identity-by-descent (IBD) segments. Several methods have been developed for estimating Ne from autosomal IBD segments, but no such effort has been made with X chromosome IBD segments. In this work, we propose a method to estimate the X chromosome effective population size from X chromosome IBD segments. We show how to use the estimated autosome Ne and X chromosome Ne to estimate the female and male effective population sizes. We demonstrate the accuracy of our autosome and X chromosome Ne estimation with simulated data. We find that the estimated female and male effective population sizes generally reflect the simulated sex-specific effective population sizes across the past 100 generations but that short-term differences between the estimated sex-specific Ne across tens of generations may not reliably indicate true sex-specific differences. We analyzed the effective size of populations represented by samples of sequenced UK White British and UK Indian individuals from the UK Biobank.</p>
3 Authors
- Ruoyi Cai
- Brian L Browning
- Sharon R Browning
1 Application
| Application ID | Title |
|---|---|
| 19934 | Statistical and Computational Genetics Methods Development |
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