Research
I research various aspects of statistical and population genetics at the Albert Einstein College of Medicine. A primary interest is the application of next-generation sequencing to better understand the properties and evolution of the human genome, particularly recombination rate variation.
Software
LDhat
VCFtools
Selected Publications
Human Population Genetics
R.D. Hernandez, J.L. Kelley, E. Elyashiv, S.C. Melton, A. Auton, G. McVean, 1000 Genomes Project, G. Sella, M. Przeworski, Classic Selective Sweeps Were Rare in Recent Human Evolution, Science, February 2011. The 1000 Genomes Project Consortium, "A map of human genome variation from population-scale sequencing", Nature, October 2010. K. Bryc, C. Velez, T. Karafet, A. Moreno-Estrada, A. Reynolds, A. Auton, M. Hammer, C.D. Bustamante, and H. Ostrer "Genome-wide patterns of population structure and admixture among Hispanic/Latino populations", PNAS, May 2010. K. Bryc, A. Auton, M.R. Nelson, J.R. Oksenberg, S.L. Hauser, S. Williams, A. Froment, J. Bodo, C. Wambebe, S.A. Tishkoff and C.D. Bustamante, "Genome-wide patterns of population structure and admixture in West Africans and African Americans", PNAS, December 2009. A. Auton, K. Bryc, A. Boyko, K. Lohmueller, J. Novembre, A. Reynolds, A. Indap, M.H. Wright, J. Degenhardt, R. Gutenkunst, K.S. King, M.R. Nelson and C.D. Bustamante, "Global distribution of genomic diversity underscores rich complex history of continental human populations", Genome Research, February 2009. J. Novembre, T. Johnson, K. Bryc, Z. Kutalik, A.R. Boyko, A. Auton, A. Indap, K.S. King, S. Bergmann, M.R. Nelson, M. Stephens and C.D. Bustamante, "Genes mirror geography within Europe", Nature, August 2008. G. Hellenthal, A. Auton and D. Falush, "Inferring Human Colonization History Using a Copying Model", PLOS Genetics, vol 4(5), May 2008. The International Hapmap Consortium, "A second generation human haplotype map of over 3.1 million SNPs", Nature, vol. 449, pp. 851-861, October 2007.
Recombination
S. Myers, C. Freeman, A. Auton, P. Donnelly, and G. McVean, "A common sequence motif associated with recombination hot spots and genome instability in humans", Nature Genetics, vol 40, pp. 1124 - 1129, August 2008. A. Auton and G. McVean, "Recombination rate estimation in the presence of hotspots", Genome research, vol. 17, pp. 1219-1227, August 2007. S. Myers, C.C. Spencer, A. Auton, L. Bottolo, C. Freeman, P. Donnelly and G. McVean, "The distribution and causes of meiotic recombination in the human genome", Biochemical Society transactions, vol. 34, pp. 526-30, August 2006. A. Auton, "The Estimation of Recombination Rates from Population Genetic Data", DPhil Thesis, 2007
Canine Genetics
B.M. vonHoldt, J.P. Pollinger, K.E. Lohmueller, E. Han, H.G. Parker, P. Quignon, J.D. Degenhardt, A.R. Boyko, D.A. Earl, A. Auton, A. Reynolds, K. Bryc, A. Brisbin, J.C. Knowles, D.S. Mosher, T.C. Spady, A. Elkahloun, E. Geffen, M. Pilot, W. Jedrzejewski, C. Greco, E. Randi, D. Bannasch, A. Wilton, J. Shearman, M. Musiani, M. Cargill, P.G. Jones, Z. Qian, W. Huang, Z. Ding, Y. Zhang, C.D. Bustamante, E.A. Ostrander, J. Novembre and R.K. Wayne, "Genome-wide SNP and haplotype analyses reveal a rich history underlying dog domestication", Nature, March 2010. A.R. Boyko, R.H. Boyko, C.M. Boyko, H.G. Parker, M. Castelhano, L. Corey, J.D. Degenhardt, A. Auton, M. Hedimbi, R. Kityo, E.A. Ostrander, J. Schoenebeck, R.J. Todhunter, P. Jones and C.D. Bustamante, "Complex population structure in African village dogs and its implications for inferring dog domestication history", PNAS, August 2009.
Miscellaneous
P. Danecek*, A. Auton*, G. Abecasis, C.A. Albers, E. Banks, M.A. DePristo, R. Handsaker, G. Lunter, G. Marth, S.T. Sherry, G. McVean, R. Durbin, 1000 Genomes Project Analysis Group, "The Variant Call Format and VCFtools", Bioinformatics, June 2011. (* Contributed equally to VCFtools)
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