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SnIPRE: selection inference using a Poisson random effects model.
Eilertson KE, Booth JG, Bustamante CD. Eilertson KE, et al. Among authors: bustamante cd. PLoS Comput Biol. 2012;8(12):e1002806. doi: 10.1371/journal.pcbi.1002806. Epub 2012 Dec 6. PLoS Comput Biol. 2012. PMID: 23236270 Free PMC article.
Inference of gorilla demographic and selective history from whole-genome sequence data.
McManus KF, Kelley JL, Song S, Veeramah KR, Woerner AE, Stevison LS, Ryder OA, Ape Genome Project G, Kidd JM, Wall JD, Bustamante CD, Hammer MF. McManus KF, et al. Among authors: bustamante cd. Mol Biol Evol. 2015 Mar;32(3):600-12. doi: 10.1093/molbev/msu394. Epub 2014 Dec 21. Mol Biol Evol. 2015. PMID: 25534031 Free PMC article.
Selective sweep mapping of genes with large phenotypic effects.
Pollinger JP, Bustamante CD, Fledel-Alon A, Schmutz S, Gray MM, Wayne RK. Pollinger JP, et al. Among authors: bustamante cd. Genome Res. 2005 Dec;15(12):1809-19. doi: 10.1101/gr.4374505. Genome Res. 2005. PMID: 16339379 Free PMC article.
Simultaneous inference of selection and population growth from patterns of variation in the human genome.
Williamson SH, Hernandez R, Fledel-Alon A, Zhu L, Nielsen R, Bustamante CD. Williamson SH, et al. Among authors: bustamante cd. Proc Natl Acad Sci U S A. 2005 May 31;102(22):7882-7. doi: 10.1073/pnas.0502300102. Epub 2005 May 19. Proc Natl Acad Sci U S A. 2005. PMID: 15905331 Free PMC article.
Population genetics of polymorphism and divergence for diploid selection models with arbitrary dominance.
Williamson S, Fledel-Alon A, Bustamante CD. Williamson S, et al. Among authors: bustamante cd. Genetics. 2004 Sep;168(1):463-75. doi: 10.1534/genetics.103.024745. Genetics. 2004. PMID: 15454557 Free PMC article.
Maximum likelihood and Bayesian methods for estimating the distribution of selective effects among classes of mutations using DNA polymorphism data.
Bustamante CD, Nielsen R, Hartl DL. Bustamante CD, et al. Theor Popul Biol. 2003 Mar;63(2):91-103. doi: 10.1016/s0040-5809(02)00050-3. Theor Popul Biol. 2003. PMID: 12615493
Patterns of positive selection in six Mammalian genomes.
Kosiol C, Vinar T, da Fonseca RR, Hubisz MJ, Bustamante CD, Nielsen R, Siepel A. Kosiol C, et al. Among authors: bustamante cd. PLoS Genet. 2008 Aug 1;4(8):e1000144. doi: 10.1371/journal.pgen.1000144. PLoS Genet. 2008. PMID: 18670650 Free PMC article.
Population genetics of polymorphism and divergence under fluctuating selection.
Huerta-Sanchez E, Durrett R, Bustamante CD. Huerta-Sanchez E, et al. Among authors: bustamante cd. Genetics. 2008 Jan;178(1):325-37. doi: 10.1534/genetics.107.073361. Epub 2007 Oct 18. Genetics. 2008. PMID: 17947441 Free PMC article.
Distance from sub-Saharan Africa predicts mutational load in diverse human genomes.
Henn BM, Botigué LR, Peischl S, Dupanloup I, Lipatov M, Maples BK, Martin AR, Musharoff S, Cann H, Snyder MP, Excoffier L, Kidd JM, Bustamante CD. Henn BM, et al. Among authors: bustamante cd. Proc Natl Acad Sci U S A. 2016 Jan 26;113(4):E440-9. doi: 10.1073/pnas.1510805112. Epub 2015 Dec 28. Proc Natl Acad Sci U S A. 2016. PMID: 26712023 Free PMC article.
Population genomic analysis reveals a rich speciation and demographic history of orang-utans (Pongo pygmaeus and Pongo abelii).
Ma X, Kelley JL, Eilertson K, Musharoff S, Degenhardt JD, Martins AL, Vinar T, Kosiol C, Siepel A, Gutenkunst RN, Bustamante CD. Ma X, et al. Among authors: bustamante cd. PLoS One. 2013 Oct 23;8(10):e77175. doi: 10.1371/journal.pone.0077175. eCollection 2013. PLoS One. 2013. PMID: 24194868 Free PMC article.
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