John Novembre - Publications

University of Chicago, Chicago, IL 
Population genetics

51 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
2019 Peter BM, Petkova D, Novembre J. Genetic landscapes reveal how human genetic diversity aligns with geography. Molecular Biology and Evolution. PMID 31778174 DOI: 10.1093/molbev/msz280  0.8
2019 Koch E, Schweizer RM, Schweizer TM, Stahler DR, Smith DW, Wayne RK, Novembre J. De novo mutation rate estimation in wolves of known pedigree. Molecular Biology and Evolution. PMID 31297530 DOI: 10.1093/molbev/msz159  0.56
2019 Al-Asadi H, Petkova D, Stephens M, Novembre J. Estimating recent migration and population-size surfaces. Plos Genetics. 15: e1007908. PMID 30640906 DOI: 10.1371/journal.pgen.1007908  0.48
2018 Reppell M, Novembre J. Using pseudoalignment and base quality to accurately quantify microbial community composition. Plos Computational Biology. 14: e1006096. PMID 29659582 DOI: 10.1371/journal.pcbi.1006096  0.56
2017 Jeong C, Peter BM, Basnyat B, Neupane M, Beall CM, Childs G, Craig SR, Novembre J, Di Rienzo A. Correction: A longitudinal cline characterizes the genetic structure of human populations in the Tibetan plateau. Plos One. 12: e0183407. PMID 28797074 DOI: 10.1371/journal.pone.0183407  0.8
2017 Jeong C, Peter BM, Basnyat B, Neupane M, Beall CM, Childs G, Craig SR, Novembre J, Di Rienzo A. A longitudinal cline characterizes the genetic structure of human populations in the Tibetan plateau. Plos One. 12: e0175885. PMID 28448508 DOI: 10.1371/journal.pone.0175885  0.8
2017 Koch E, Novembre J. A Temporal Perspective on the Interplay of Demography and Selection on Deleterious Variation in Humans. G3 (Bethesda, Md.). PMID 28159863 DOI: 10.1534/g3.117.039651  0.56
2016 de Manuel M, Kuhlwilm M, Frandsen P, Sousa VC, Desai T, Prado-Martinez J, Hernandez-Rodriguez J, Dupanloup I, Lao O, Hallast P, Schmidt JM, Heredia-Genestar JM, Benazzo A, Barbujani G, Peter BM, ... ... Novembre J, et al. Chimpanzee genomic diversity reveals ancient admixture with bonobos. Science (New York, N.Y.). 354: 477-481. PMID 27789843 DOI: 10.1126/science.aag2602  0.8
2016 Novembre J, Peter BM. Recent advances in the study of fine-scale population structure in humans. Current Opinion in Genetics & Development. 41: 98-105. PMID 27662060 DOI: 10.1016/j.gde.2016.08.007  0.8
2015 Petkova D, Novembre J, Stephens M. Visualizing spatial population structure with estimated effective migration surfaces. Nature Genetics. PMID 26642242 DOI: 10.1038/ng.3464  0.48
2014 Reppell M, Koch E, Peter BM, Novembre J. Surfing waves of data in San Diego: sophisticated analyses provide a broad view of human genetic diversity. Genome Biology. 15: 562. PMID 25651070 DOI: 10.1186/s13059-014-0562-4  0.8
2014 Rañola JMi, Novembre J, Lange K. Fast spatial ancestry via flexible allele frequency surfaces Bioinformatics (Oxford, England). 30: 2915-2922. PMID 25012181 DOI: 10.1093/bioinformatics/btu418  0.92
2014 Freedman AH, Gronau I, Schweizer RM, Ortega-Del Vecchyo D, Han E, Silva PM, Galaverni M, Fan Z, Marx P, Lorente-Galdos B, Beale H, Ramirez O, Hormozdiari F, Alkan C, Vilà C, ... ... Novembre J, et al. Genome sequencing highlights the dynamic early history of dogs. Plos Genetics. 10: e1004016. PMID 24453982 DOI: 10.1371/journal.pgen.1004016  0.92
2014 Zawistowski M, Reppell M, Wegmann D, St Jean PL, Ehm MG, Nelson MR, Novembre J, Zöllner S. Analysis of rare variant population structure in Europeans explains differential stratification of gene-based tests. European Journal of Human Genetics : Ejhg. 22: 1137-44. PMID 24398795 DOI: 10.1038/ejhg.2013.297  0.56
2013 Schaibley VM, Zawistowski M, Wegmann D, Ehm MG, Nelson MR, St Jean PL, Abecasis GR, Novembre J, Zöllner S, Li JZ. The influence of genomic context on mutation patterns in the human genome inferred from rare variants. Genome Research. 23: 1974-84. PMID 23990608 DOI: 10.1101/gr.154971.113  0.92
2013 Rundel CW, Wunder MB, Alvarado AH, Ruegg KC, Harrigan R, Schuh A, Kelly JF, Siegel RB, Desante DF, Smith TB, Novembre J. Novel statistical methods for integrating genetic and stable isotope data to infer individual-level migratory connectivity. Molecular Ecology. 22: 4163-76. PMID 23906339 DOI: 10.1111/mec.12393  0.92
2013 Kessner D, Turner TL, Novembre J. Maximum likelihood estimation of frequencies of known haplotypes from pooled sequence data. Molecular Biology and Evolution. 30: 1145-58. PMID 23364324 DOI: 10.1093/molbev/mst016  0.92
2012 Novembre J. Commentary on Sokal, Oden, and Thomson's "a problem with synthetic maps" (1999). Human Biology. 84: 623-626. PMID 23526348 DOI: 10.3378/027.084.0512  0.92
2012 Yang WY, Novembre J, Eskin E, Halperin E. A model-based approach for analysis of spatial structure in genetic data Nature Genetics. 44: 725-731. PMID 22610118 DOI: 10.1038/ng.2285  0.92
2012 Nelson MR, Wegmann D, Ehm MG, Kessner D, St Jean P, Verzilli C, Shen J, Tang Z, Bacanu SA, Fraser D, Warren L, Aponte J, Zawistowski M, Liu X, Zhang H, ... ... Novembre J, et al. An abundance of rare functional variants in 202 drug target genes sequenced in 14,002 people. Science (New York, N.Y.). 337: 100-4. PMID 22604722 DOI: 10.1126/science.1217876  0.92
2012 Rubio JP, Topp S, Warren L, St Jean PL, Wegmann D, Kessner D, Novembre J, Shen J, Fraser D, Aponte J, Nangle K, Cardon LR, Ehm MG, Chissoe SL, Whittaker JC, et al. Deep sequencing of the LRRK2 gene in 14,002 individuals reveals evidence of purifying selection and independent origin of the p.Arg1628Pro mutation in Europe. Human Mutation. 33: 1087-98. PMID 22415848 DOI: 10.1002/humu.22075  0.92
2012 Fuller T, Bensch S, Müller I, Novembre J, Pérez-Tris J, Ricklefs RE, Smith TB, Waldenström J. The ecology of emerging infectious diseases in migratory birds: an assessment of the role of climate change and priorities for future research. Ecohealth. 9: 80-8. PMID 22366978 DOI: 10.1007/s10393-012-0750-1  0.92
2012 Novembre J, Han E. Human population structure and the adaptive response to pathogen-induced selection pressures Philosophical Transactions of the Royal Society B: Biological Sciences. 367: 878-886. PMID 22312055 DOI: 10.1098/rstb.2011.0305  0.92
2012 Platt A, Novembre J. A new era of human population genetics Genome Biology. 182. DOI: 10.1186/gb4066  0.92
2011 Novembre J, Ramachandran S. Perspectives on human population structure at the cusp of the sequencing Era Annual Review of Genomics and Human Genetics. 12: 245-274. PMID 21801023 DOI: 10.1146/annurev-genom-090810-183123  0.92
2011 Gross A, Tönjes A, Kovacs P, Veeramah KR, Ahnert P, Roshyara NR, Gieger C, Rueckert IM, Loeffler M, Stoneking M, Wichmann HE, Novembre J, Stumvoll M, Scholz M. Population-genetic comparison of the Sorbian isolate population in Germany with the German KORA population using genome-wide SNP arrays. Bmc Genetics. 12: 67. PMID 21798003 DOI: 10.1186/1471-2156-12-67  0.92
2011 Wegmann D, Kessner DE, Veeramah KR, Mathias RA, Nicolae DL, Yanek LR, Sun YV, Torgerson DG, Rafaels N, Mosley T, Becker LC, Ruczinski I, Beaty TH, Kardia SL, Meyers DA, ... ... Novembre J, et al. Recombination rates in admixed individuals identified by ancestry-based inference. Nature Genetics. 43: 847-53. PMID 21775992 DOI: 10.1038/ng.894  0.92
2011 vonHoldt BM, Pollinger JP, Earl DA, Knowles JC, Boyko AR, Parker H, Geffen E, Pilot M, Jedrzejewski W, Jedrzejewska B, Sidorovich V, Greco C, Randi E, Musiani M, Kays R, ... ... Novembre J, et al. A genome-wide perspective on the evolutionary history of enigmatic wolf-like canids. Genome Research. 21: 1294-305. PMID 21566151 DOI: 10.1101/gr.116301.110  0.92
2011 Veeramah KR, Tönjes A, Kovacs P, Gross A, Wegmann D, Geary P, Gasperikova D, Klimes I, Scholz M, Novembre J, Stumvoll M. Genetic variation in the Sorbs of eastern Germany in the context of broader European genetic diversity. European Journal of Human Genetics : Ejhg. 19: 995-1001. PMID 21559053 DOI: 10.1038/ejhg.2011.65  0.92
2010 Novembre J, Stephens M. Response to Cavalli-Sforza interview [Human Biology 82(3):245-266 (June 2010)] Human Biology. 82: 469-470. PMID 21082913  0.92
2010 Destro-Bisol G, Jobling MA, Rocha J, Novembre J, Richards MB, Mulligan C, Batini C, Manni F. Molecular Anthropology in the genomic era Journal of Anthropological Sciences. 88: 93-112. PMID 20834052  0.92
2010 Boyko AR, Quignon P, Li L, Schoenebeck JJ, Degenhardt JD, Lohmueller KE, Zhao K, Brisbin A, Parker HG, vonHoldt BM, Cargill M, Auton A, Reynolds A, Elkahloun AG, Castelhano M, ... ... Novembre J, et al. A simple genetic architecture underlies morphological variation in dogs. Plos Biology. 8: e1000451. PMID 20711490 DOI: 10.1371/journal.pbio.1000451  0.92
2010 Royal CD, Novembre J, Fullerton SM, Goldstein DB, Long JC, Bamshad MJ, Clark AG. Inferring genetic ancestry: opportunities, challenges, and implications. American Journal of Human Genetics. 86: 661-73. PMID 20466090 DOI: 10.1016/j.ajhg.2010.03.011  0.92
2010 Vonholdt BM, Pollinger JP, Lohmueller KE, Han E, Parker HG, Quignon P, Degenhardt JD, Boyko AR, Earl DA, Auton A, Reynolds A, Bryc K, Brisbin A, Knowles JC, Mosher DS, ... ... Novembre J, et al. Genome-wide SNP and haplotype analyses reveal a rich history underlying dog domestication. Nature. 464: 898-902. PMID 20237475 DOI: 10.1038/nature08837  0.92
2010 Franois O, Currat M, Ray N, Han E, Excoffier L, Novembre J. Principal component analysis under population genetic models of range expansion and admixture Molecular Biology and Evolution. 27: 1257-1268. PMID 20097660 DOI: 10.1093/molbev/msq010  0.92
2009 Novembre J, Di Rienzo A. Spatial patterns of variation due to natural selection in humans. Nature Reviews. Genetics. 10: 745-55. PMID 19823195 DOI: 10.1038/nrg2632  0.92
2009 Alexander DH, Novembre J, Lange K. Fast model-based estimation of ancestry in unrelated individuals Genome Research. 19: 1655-1664. PMID 19648217 DOI: 10.1101/gr.094052.109  0.92
2009 Novembre J, Slatkin M. Likelihood-based inference in isolation-by-distance models using the spatial distribution of low-frequency alleles. Evolution; International Journal of Organic Evolution. 63: 2914-25. PMID 19624728 DOI: 10.1111/j.1558-5646.2009.00775.x  0.92
2009 Coop G, Pickrell JK, Novembre J, Kudaravalli S, Li J, Absher D, Myers RM, Cavalli-Sforza LL, Feldman MW, Pritchard JK. The role of geography in human adaptation. Plos Genetics. 5: e1000500. PMID 19503611 DOI: 10.1371/journal.pgen.1000500  0.92
2009 Pickrell JK, Coop G, Novembre J, Kudaravalli S, Li JZ, Absher D, Srinivasan BS, Barsh GS, Myers RM, Feldman MW, Pritchard JK. Signals of recent positive selection in a worldwide sample of human populations. Genome Research. 19: 826-37. PMID 19307593 DOI: 10.1101/gr.087577.108  0.92
2009 Auton A, Bryc K, Boyko AR, Lohmueller KE, Novembre J, Reynolds A, Indap A, Wright MH, Degenhardt JD, Gutenkunst RN, King KS, Nelson MR, Bustamante CD. Global distribution of genomic diversity underscores rich complex history of continental human populations Genome Research. 19: 795-803. PMID 19218534 DOI: 10.1101/gr.088898.108  0.92
2008 Novembre J, Johnson T, Bryc K, Kutalik Z, Boyko AR, Auton A, Indap A, King KS, Bergmann S, Nelson MR, Stephens M, Bustamante CD. Genes mirror geography within Europe. Nature. 456: 98-101. PMID 18758442 DOI: 10.1038/nature07331  0.92
2008 Novembre J, Johnson T, Bryc K, Kutalik Z, Boyko AR, Auton A, Indap A, King KS, Bergmann S, Nelson MR, Stephens M, Bustamante CD. Genes mirror geography within Europe (Nature (2008) 456, (98-101)) Nature. 456: 274. DOI: 10.1038/nature07566  0.92
2005 Novembre J, Galvani AP, Slatkin M. The geographic spread of the CCR5 Delta32 HIV-resistance allele. Plos Biology. 3: e339. PMID 16216086 DOI: 10.1371/journal.pbio.0030339  0.92
2005 Galvani AP, Novembre J. The evolutionary history of the CCR5-Delta32 HIV-resistance mutation. Microbes and Infection / Institut Pasteur. 7: 302-309. PMID 15715976  0.56
2005 Galvani AP, Novembre J. The evolutionary history of the CCR5-Δ32 HIV-resistance mutation Microbes and Infection. 7: 301-308. DOI: 10.1016/j.micinf.2004.12.006  0.92
2003 Herbeck JT, Novembre J. Codon usage patterns in cytochrome oxidase I across multiple insect orders Journal of Molecular Evolution. 56: 691-701. PMID 12911032 DOI: 10.1007/s00239-002-2437-7  0.92
2003 Wall DP, Herbeck JT. Evolutionary patterns of codon usage in the chloroplast gene rbcL. Journal of Molecular Evolution. 56: 673-88; discussion 6. PMID 12911031 DOI: 10.1007/s00239-002-2440-z  0.92
2003 Anderson EC, Novembre J. Finding haplotype block boundaries by using the minimum-description-length principle American Journal of Human Genetics. 73: 336-354. PMID 12858289 DOI: 10.1086/377106  0.92
2002 Novembre JA. Accounting for background nucleotide composition when measuring codon usage bias [2] Molecular Biology and Evolution. 19: 1390-1394. PMID 12140252  0.92
2000 Excoffier L, Novembre J, Schneider S. SIMCOAL: A general coalescent program for the simulation of molecular data in interconnected populations with arbitrary demography Journal of Heredity. 91: 506-509. PMID 11218093  0.92
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