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Melissa J Hubisz - Publications

Affiliations: 
Biological Statistics and Computational Biology Cornell University, Ithaca, NY, United States 
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31 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Bracci AN, Dallmann A, Ding Q, Hubisz MJ, Caballero M, Koren A. The evolution of the human DNA replication timing program. Proceedings of the National Academy of Sciences of the United States of America. 120: e2213896120. PMID 36848554 DOI: 10.1073/pnas.2213896120  0.346
2020 Hejase HA, Salman-Minkov A, Campagna L, Hubisz MJ, Lovette IJ, Gronau I, Siepel A. Genomic islands of differentiation in a rapid avian radiation have been driven by recent selective sweeps. Proceedings of the National Academy of Sciences of the United States of America. 117: 30554-30565. PMID 33199636 DOI: 10.1073/pnas.2015987117  0.39
2020 Hubisz MJ, Williams AL, Siepel A. Mapping gene flow between ancient hominins through demography-aware inference of the ancestral recombination graph. Plos Genetics. 16. PMID 32760067 DOI: 10.1371/Journal.Pgen.1008895  0.527
2020 Hubisz M, Siepel A. Inference of Ancestral Recombination Graphs Using ARGweaver. Methods of Molecular Biology. 2090: 231-266. PMID 31975170 DOI: 10.1007/978-1-0716-0199-0_10  0.361
2016 Kuhlwilm M, Gronau I, Hubisz MJ, de Filippo C, Prado-Martinez J, Kircher M, Fu Q, Burbano HA, Lalueza-Fox C, de la Rasilla M, Rosas A, Rudan P, Brajkovic D, Kucan Ž, Gušic I, et al. Ancient gene flow from early modern humans into Eastern Neanderthals. Nature. PMID 26886800 DOI: 10.1038/Nature16544  0.359
2015 Gulko B, Hubisz MJ, Gronau I, Siepel A. A method for calculating probabilities of fitness consequences for point mutations across the human genome Nature Genetics. 47: 276-283. PMID 25599402 DOI: 10.1038/Ng.3196  0.581
2014 Hubisz MJ, Pollard KS. Exploring the genesis and functions of Human Accelerated Regions sheds light on their role in human evolution Current Opinion in Genetics and Development. 29: 15-21. PMID 25156517 DOI: 10.1016/J.Gde.2014.07.005  0.528
2014 Rasmussen MD, Hubisz MJ, Gronau I, Siepel A. Genome-wide inference of ancestral recombination graphs. Plos Genetics. 10: e1004342. PMID 24831947 DOI: 10.1371/Journal.Pgen.1004342  0.509
2013 Capra JA, Hubisz MJ, Kostka D, Pollard KS, Siepel A. A Model-Based Analysis of GC-Biased Gene Conversion in the Human and Chimpanzee Genomes Plos Genetics. 9. PMID 23966869 DOI: 10.1371/Journal.Pgen.1003684  0.534
2013 Arbiza L, Gronau I, Aksoy BA, Hubisz MJ, Gulko B, Keinan A, Siepel A. Genome-wide inference of natural selection on human transcription factor binding sites Nature Genetics. 45: 723-729. PMID 23749186 DOI: 10.1038/Ng.2658  0.579
2012 Choi SC, Rasmussen MD, Hubisz MJ, Gronau I, Stanhope MJ, Siepel A. Replacing and additive horizontal gene transfer in Streptococcus. Molecular Biology and Evolution. 29: 3309-20. PMID 22617954 DOI: 10.1093/Molbev/Mss138  0.314
2012 Kostka D, Hubisz MJ, Siepel A, Pollard KS. The role of GC-Biased gene conversion in shaping the fastest evolving regions of the human genome Molecular Biology and Evolution. 29: 1047-1057. PMID 22075116 DOI: 10.1093/Molbev/Msr279  0.468
2011 Lindblad-Toh K, Garber M, Zuk O, Lin MF, Parker BJ, Washietl S, Kheradpour P, Ernst J, Jordan G, Mauceli E, Ward LD, Lowe CB, Holloway AK, Clamp M, Gnerre S, ... ... Hubisz MJ, et al. A high-resolution map of human evolutionary constraint using 29 mammals. Nature. 478: 476-82. PMID 21993624 DOI: 10.1038/Nature10530  0.525
2011 Gronau I, Hubisz MJ, Gulko B, Danko CG, Siepel A. Bayesian inference of ancient human demography from individual genome sequences Nature Genetics. 43: 1031-1034. PMID 21926973 DOI: 10.1038/Ng.937  0.585
2011 Suzuki H, Lefébure T, Hubisz MJ, Pavinski Bitar P, Lang P, Siepel A, Stanhope MJ. Comparative genomic analysis of the Streptococcus dysgalactiae species group: gene content, molecular adaptation, and promoter evolution. Genome Biology and Evolution. 3: 168-85. PMID 21282711 DOI: 10.1093/Gbe/Evr006  0.39
2010 Pollard KS, Hubisz MJ, Rosenbloom KR, Siepel A. Detection of nonneutral substitution rates on mammalian phylogenies Genome Research. 20: 110-121. PMID 19858363 DOI: 10.1101/Gr.097857.109  0.409
2010 Ostrander EA, Boyko A, Quignon P, Li L, Schoenebeck JJ, Degenhardt JD, Lohmueller KE, Zhao K, Brisbin A, Parker HG, Holdt BMV, Cargill M, Auton A, Reynolds A, Elkahloun AG, ... ... Hubisz MJ, et al. Tracking genes and finding mutations: finding genes for complex traits in the domestic dog (Canis familiaris) Genome Biology. 11: 1-1. DOI: 10.1186/Gb-2010-11-S1-I23  0.314
2009 Andrés AM, Hubisz MJ, Indap A, Torgerson DG, Degenhardt JD, Boyko AR, Gutenkunst RN, White TJ, Green ED, Bustamante CD, Clark AG, Nielsen R. Targets of balancing selection in the human genome. Molecular Biology and Evolution. 26: 2755-64. PMID 19713326 DOI: 10.1093/Molbev/Msp190  0.422
2009 Nielsen R, Hubisz MJ, Hellmann I, Torgerson D, Andrés AM, Albrechtsen A, Gutenkunst R, Adams MD, Cargill M, Boyko A, Indap A, Bustamante CD, Clark AG. Darwinian and demographic forces affecting human protein coding genes. Genome Research. 19: 838-49. PMID 19279335 DOI: 10.1101/Gr.088336.108  0.347
2008 Kosiol C, Vinař T, Da Fonseca RR, Hubisz MJ, Bustamante CD, Nielsen R, Siepel A. Patterns of positive selection in six mammalian genomes Plos Genetics. 4. PMID 18670650 DOI: 10.1371/Journal.Pgen.1000144  0.401
2007 Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W, Iyer VN, Pollard DA, Sackton TB, Larracuente AM, Singh ND, ... ... Hubisz MJ, et al. Evolution of genes and genomes on the Drosophila phylogeny. Nature. 450: 203-18. PMID 17994087 DOI: 10.1038/Nature06341  0.454
2007 Nielsen R, Hellmann I, Hubisz M, Bustamante C, Clark AG. Recent and ongoing selection in the human genome. Nature Reviews. Genetics. 8: 857-68. PMID 17943193 DOI: 10.1038/Nrg2187  0.544
2007 Petersen L, Bollback JP, Dimmic M, Hubisz M, Nielsen R. Genes under positive selection in Escherichia coli. Genome Research. 17: 1336-43. PMID 17675366 DOI: 10.1101/Gr.6254707  0.351
2007 Williamson SH, Hubisz MJ, Clark AG, Payseur BA, Bustamante CD, Nielsen R. Localizing recent adaptive evolution in the human genome. Plos Genetics. 3: e90. PMID 17542651 DOI: 10.1371/Journal.Pgen.0030090  0.503
2007 Gibbs RA, Rogers J, Katze MG, Bumgarner R, Weinstock GM, Mardis ER, Remington KA, Strausberg RL, Venter JC, Wilson RK, Batzer MA, Bustamante CD, Eichler EE, Hahn MW, ... ... Hubisz MJ, et al. Evolutionary and biomedical insights from the rhesus macaque genome. Science (New York, N.Y.). 316: 222-34. PMID 17431167 DOI: 10.1126/Science.1139247  0.504
2007 Shapiro JA, Huang W, Zhang C, Hubisz MJ, Lu J, Turissini DA, Fang S, Wang HY, Hudson RR, Nielsen R, Chen Z, Wu CI. Adaptive genic evolution in the Drosophila genomes. Proceedings of the National Academy of Sciences of the United States of America. 104: 2271-6. PMID 17284599 DOI: 10.1073/Pnas.0610385104  0.397
2007 Nielsen R, Bauer DuMont VL, Hubisz MJ, Aquadro CF. Maximum likelihood estimation of ancestral codon usage bias parameters in Drosophila. Molecular Biology and Evolution. 24: 228-35. PMID 17041152 DOI: 10.1093/Molbev/Msl146  0.31
2005 Nielsen R, Williamson S, Kim Y, Hubisz MJ, Clark AG, Bustamante C. Genomic scans for selective sweeps using SNP data. Genome Research. 15: 1566-75. PMID 16251466 DOI: 10.1101/Gr.4252305  0.373
2005 Clark AG, Hubisz MJ, Bustamante CD, Williamson SH, Nielsen R. Ascertainment bias in studies of human genome-wide polymorphism. Genome Research. 15: 1496-502. PMID 16251459 DOI: 10.1101/Gr.4107905  0.355
2005 Nielsen R, Bustamante C, Clark AG, Glanowski S, Sackton TB, Hubisz MJ, Fledel-Alon A, Tanenbaum DM, Civello D, White TJ, J Sninsky J, Adams MD, Cargill M. A scan for positively selected genes in the genomes of humans and chimpanzees. Plos Biology. 3: e170. PMID 15869325 DOI: 10.1371/Journal.Pbio.0030170  0.304
2005 Richards S, Liu Y, Bettencourt BR, Hradecky P, Letovsky S, Nielsen R, Thornton K, Hubisz MJ, Chen R, Meisel RP, Couronne O, Hua S, Smith MA, Zhang P, Liu J, et al. Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution. Genome Research. 15: 1-18. PMID 15632085 DOI: 10.1101/Gr.3059305  0.45
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