Areas of Interest
We use molecular and computational tools to address fundamental questions in genome biology, evolution, and disease. We explore genome variation across multiple time scales — among primates, dogs and wolves, and the individual somatic cells in an organism. We are an interdisciplinary team that works with experts in genome sequencing and analysis, bioinformatics, molecular biology, virology, neurology, and population genetics.
Published Articles or Reviews
Song S, Sliwerska E, Emery S, Kidd JM Modeling human population separation history using physically phased genomes. Genetics. 2016 November 9; DOI: 10.1534/genetics.116.192963
Oetjens MT, Shen F, Emery SB, Zou Z, Kidd JM Y-chromosome structural diversity in the bonobo and chimpanzee lineages. Genome Biol Evol. 2016 Aug 3;8(7):2231-40. PMC4987114
Wildschutte JH, Williams ZH, Montesion M, Subramanian RP, Kidd JM, Coffin JM Discovery of unfixed endogenous retrovirus insertions in diverse human populations. Proc Natl Acad Sci U S A. 2016 Apr 19;113(16):E2326-34 PMC4843416
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. Distance from sub-Saharan Africa predicts mutational load in diverse human genomes. Proc Natl Acad Sci U S A. 2016 Jan 26;113(4):E440-9 PMC4743782
Wildschutte JH, Baron A, Diroff NM, Kidd JM. Discovery and characterization of Alu repeat sequences via precise local read assembly. Nucleic Acids Res. 2015 Dec 2;43(21):10292-307. PMC4666360
Auton A, Rui Li Y, Kidd J, Oliveira K, Nadel J, Holloway JK, Hayward JJ, Cohen PE, Greally JM, Wang J, Bustamante CD, Boyko AR Genetic recombination is targeted towards gene promoter regions in dogs. PLoS Genet. 2013 Dec;9(12):e1003984 PMC3861134
Poznik GD, Henn BM, Yee MC, Sliwerska E, Euskirchen GM, Lin AA, Snyder M, Quintana-Murci L, Kidd JM, Underhill PA, Bustamante CD. Sequencing Y chromosomes resolves discrepancy in time to common ancestor of males versus females. Science. 2013 Aug 2;341(6145):562-5. PMC4032117