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The Linked Selection Signature of Rapid Adaptation in Temporal Genomic Data.

Buffalo V, Coop G.

Genetics. 2019 Nov;213(3):1007-1045. doi: 10.1534/genetics.119.302581. Epub 2019 Sep 26.


Donnelly (1983) and the limits of genetic genealogy.

Edge MD, Coop G.

Theor Popul Biol. 2019 Aug 17. pii: S0040-5809(19)30077-2. doi: 10.1016/j.tpb.2019.08.002. [Epub ahead of print] No abstract available.


Population genomics perspectives on convergent adaptation.

Lee KM, Coop G.

Philos Trans R Soc Lond B Biol Sci. 2019 Jul 22;374(1777):20180236. doi: 10.1098/rstb.2018.0236. Epub 2019 Jun 3.


Reduced signal for polygenic adaptation of height in UK Biobank.

Berg JJ, Harpak A, Sinnott-Armstrong N, Joergensen AM, Mostafavi H, Field Y, Boyle EA, Zhang X, Racimo F, Pritchard JK, Coop G.

Elife. 2019 Mar 21;8. pii: e39725. doi: 10.7554/eLife.39725.


Detecting Adaptive Differentiation in Structured Populations with Genomic Data and Common Gardens.

Josephs EB, Berg JJ, Ross-Ibarra J, Coop G.

Genetics. 2019 Mar;211(3):989-1004. doi: 10.1534/genetics.118.301786. Epub 2019 Jan 24.


Allele frequency dynamics in a pedigreed natural population.

Chen N, Juric I, Cosgrove EJ, Bowman R, Fitzpatrick JW, Schoech SJ, Clark AG, Coop G.

Proc Natl Acad Sci U S A. 2019 Feb 5;116(6):2158-2164. doi: 10.1073/pnas.1813852116. Epub 2018 Dec 31.


Reconstructing the History of Polygenic Scores Using Coalescent Trees.

Edge MD, Coop G.

Genetics. 2019 Jan;211(1):235-262. doi: 10.1534/genetics.118.301687. Epub 2018 Nov 2.


Inferring Continuous and Discrete Population Genetic Structure Across Space.

Bradburd GS, Coop GM, Ralph PL.

Genetics. 2018 Sep;210(1):33-52. doi: 10.1534/genetics.118.301333. Epub 2018 Jul 19.


Estimating Time to the Common Ancestor for a Beneficial Allele.

Smith J, Coop G, Stephens M, Novembre J.

Mol Biol Evol. 2018 Apr 1;35(4):1003-1017. doi: 10.1093/molbev/msy006. Erratum in: Mol Biol Evol. 2018 Jul 1;35(7):1821.


Distinguishing Among Modes of Convergent Adaptation Using Population Genomic Data.

Lee KM, Coop G.

Genetics. 2017 Dec;207(4):1591-1619. doi: 10.1534/genetics.117.300417. Epub 2017 Oct 18.


Deconstructing isolation-by-distance: The genomic consequences of limited dispersal.

Aguillon SM, Fitzpatrick JW, Bowman R, Schoech SJ, Clark AG, Coop G, Chen N.

PLoS Genet. 2017 Aug 3;13(8):e1006911. doi: 10.1371/journal.pgen.1006911. eCollection 2017 Aug.


Population-genomic inference of the strength and timing of selection against gene flow.

Aeschbacher S, Selby JP, Willis JH, Coop G.

Proc Natl Acad Sci U S A. 2017 Jul 3;114(27):7061-7066. doi: 10.1073/pnas.1616755114. Epub 2017 Jun 20.


Inferring Recent Demography from Isolation by Distance of Long Shared Sequence Blocks.

Ringbauer H, Coop G, Barton NH.

Genetics. 2017 Mar;205(3):1335-1351. doi: 10.1534/genetics.116.196220. Epub 2017 Jan 20.


The Strength of Selection against Neanderthal Introgression.

Juric I, Aeschbacher S, Coop G.

PLoS Genet. 2016 Nov 8;12(11):e1006340. doi: 10.1371/journal.pgen.1006340. eCollection 2016 Nov.


A Genomic Map of the Effects of Linked Selection in Drosophila.

Elyashiv E, Sattath S, Hu TT, Strutsovsky A, McVicker G, Andolfatto P, Coop G, Sella G.

PLoS Genet. 2016 Aug 18;12(8):e1006130. doi: 10.1371/journal.pgen.1006130. eCollection 2016 Aug.


A Genealogical Look at Shared Ancestry on the X Chromosome.

Buffalo V, Mount SM, Coop G.

Genetics. 2016 Sep;204(1):57-75. doi: 10.1534/genetics.116.190041. Epub 2016 Jun 29.


A Spatial Framework for Understanding Population Structure and Admixture.

Bradburd GS, Ralph PL, Coop GM.

PLoS Genet. 2016 Jan 15;12(1):e1005703. doi: 10.1371/journal.pgen.1005703. eCollection 2016 Jan.


The Role of Standing Variation in Geographic Convergent Adaptation.

Ralph PL, Coop G.

Am Nat. 2015 Oct;186 Suppl 1:S5-23. doi: 10.1086/682948. Epub 2015 Sep 8.


Convergent Evolution During Local Adaptation to Patchy Landscapes.

Ralph PL, Coop G.

PLoS Genet. 2015 Nov 16;11(11):e1005630. doi: 10.1371/journal.pgen.1005630. eCollection 2015 Nov.


A Coalescent Model for a Sweep of a Unique Standing Variant.

Berg JJ, Coop G.

Genetics. 2015 Oct;201(2):707-25. doi: 10.1534/genetics.115.178962. Epub 2015 Aug 25.


The Spatial Mixing of Genomes in Secondary Contact Zones.

Sedghifar A, Brandvain Y, Ralph P, Coop G.

Genetics. 2015 Sep;201(1):243-61. doi: 10.1534/genetics.115.179838. Epub 2015 Jul 22.


Complex histories of repeated gene flow in Cameroon crater lake cichlids cast doubt on one of the clearest examples of sympatric speciation.

Martin CH, Cutler JS, Friel JP, Dening Touokong C, Coop G, Wainwright PC.

Evolution. 2015 Jun;69(6):1406-1422. doi: 10.1111/evo.12674. Epub 2015 Jun 9.


Sperm should evolve to make female meiosis fair.

Brandvain Y, Coop G.

Evolution. 2015 Apr;69(4):1004-14. doi: 10.1111/evo.12621. Epub 2015 Mar 23.


A population genetic signal of polygenic adaptation.

Berg JJ, Coop G.

PLoS Genet. 2014 Aug 7;10(8):e1004412. doi: 10.1371/journal.pgen.1004412. eCollection 2014 Aug.


Speciation and introgression between Mimulus nasutus and Mimulus guttatus.

Brandvain Y, Kenney AM, Flagel L, Coop G, Sweigart AL.

PLoS Genet. 2014 Jun 26;10(6):e1004410. doi: 10.1371/journal.pgen.1004410. eCollection 2014 Jun.


Disentangling the effects of geographic and ecological isolation on genetic differentiation.

Bradburd GS, Ralph PL, Coop GM.

Evolution. 2013 Nov;67(11):3258-73. doi: 10.1111/evo.12193. Epub 2013 Jul 24.


Genomic identification of founding haplotypes reveals the history of the selfing species Capsella rubella.

Brandvain Y, Slotte T, Hazzouri KM, Wright SI, Coop G.

PLoS Genet. 2013;9(9):e1003754. doi: 10.1371/journal.pgen.1003754. Epub 2013 Sep 12.


Robust identification of local adaptation from allele frequencies.

Günther T, Coop G.

Genetics. 2013 Sep;195(1):205-20. doi: 10.1534/genetics.113.152462. Epub 2013 Jul 2.


The Capsella rubella genome and the genomic consequences of rapid mating system evolution.

Slotte T, Hazzouri KM, Ågren JA, Koenig D, Maumus F, Guo YL, Steige K, Platts AE, Escobar JS, Newman LK, Wang W, Mandáková T, Vello E, Smith LM, Henz SR, Steffen J, Takuno S, Brandvain Y, Coop G, Andolfatto P, Hu TT, Blanchette M, Clark RM, Quesneville H, Nordborg M, Gaut BS, Lysak MA, Jenkins J, Grimwood J, Chapman J, Prochnik S, Shu S, Rokhsar D, Schmutz J, Weigel D, Wright SI.

Nat Genet. 2013 Jul;45(7):831-5. doi: 10.1038/ng.2669. Epub 2013 Jun 9.


The geography of recent genetic ancestry across Europe.

Ralph P, Coop G.

PLoS Biol. 2013;11(5):e1001555. doi: 10.1371/journal.pbio.1001555. Epub 2013 May 7.


Is your phylogeny informative? Measuring the power of comparative methods.

Boettiger C, Coop G, Ralph P.

Evolution. 2012 Jul;66(7):2240-51. doi: 10.1111/j.1558-5646.2011.01574.x. Epub 2012 Feb 19.


Patterns of neutral diversity under general models of selective sweeps.

Coop G, Ralph P.

Genetics. 2012 Sep;192(1):205-24. doi: 10.1534/genetics.112.141861. Epub 2012 Jun 19.


Scrambling eggs: meiotic drive and the evolution of female recombination rates.

Brandvain Y, Coop G.

Genetics. 2012 Feb;190(2):709-23. doi: 10.1534/genetics.111.136721. Epub 2011 Dec 5.


Variation in human recombination rates and its genetic determinants.

Fledel-Alon A, Leffler EM, Guan Y, Stephens M, Coop G, Przeworski M.

PLoS One. 2011;6(6):e20321. doi: 10.1371/journal.pone.0020321. Epub 2011 Jun 17.


Adaptations to climate-mediated selective pressures in humans.

Hancock AM, Witonsky DB, Alkorta-Aranburu G, Beall CM, Gebremedhin A, Sukernik R, Utermann G, Pritchard JK, Coop G, Di Rienzo A.

PLoS Genet. 2011 Apr;7(4):e1001375. doi: 10.1371/journal.pgen.1001375. Epub 2011 Apr 21.


Back to nature: ecological genomics of loblolly pine (Pinus taeda, Pinaceae).

Eckert AJ, Bower AD, González-Martínez SC, Wegrzyn JL, Coop G, Neale DB.

Mol Ecol. 2010 Sep;19(17):3789-805. doi: 10.1111/j.1365-294X.2010.04698.x. Epub 2010 Aug 13.


Parallel adaptation: one or many waves of advance of an advantageous allele?

Ralph P, Coop G.

Genetics. 2010 Oct;186(2):647-68. doi: 10.1534/genetics.110.119594. Epub 2010 Jul 26.


Using environmental correlations to identify loci underlying local adaptation.

Coop G, Witonsky D, Di Rienzo A, Pritchard JK.

Genetics. 2010 Aug;185(4):1411-23. doi: 10.1534/genetics.110.114819. Epub 2010 Jun 1.


Colloquium paper: human adaptations to diet, subsistence, and ecoregion are due to subtle shifts in allele frequency.

Hancock AM, Witonsky DB, Ehler E, Alkorta-Aranburu G, Beall C, Gebremedhin A, Sukernik R, Utermann G, Pritchard J, Coop G, Di Rienzo A.

Proc Natl Acad Sci U S A. 2010 May 11;107 Suppl 2:8924-30. doi: 10.1073/pnas.0914625107. Epub 2010 May 5.


The genetics of human adaptation: hard sweeps, soft sweeps, and polygenic adaptation.

Pritchard JK, Pickrell JK, Coop G.

Curr Biol. 2010 Feb 23;20(4):R208-15. doi: 10.1016/j.cub.2009.11.055.


PRDM9 is a major determinant of meiotic recombination hotspots in humans and mice.

Baudat F, Buard J, Grey C, Fledel-Alon A, Ober C, Przeworski M, Coop G, de Massy B.

Science. 2010 Feb 12;327(5967):836-40. doi: 10.1126/science.1183439. Epub 2009 Dec 31. Erratum in: Science. 2010 May 7;328(5979):690.


Broad-scale recombination patterns underlying proper disjunction in humans.

Fledel-Alon A, Wilson DJ, Broman K, Wen X, Ober C, Coop G, Przeworski M.

PLoS Genet. 2009 Sep;5(9):e1000658. doi: 10.1371/journal.pgen.1000658. Epub 2009 Sep 18.


Expression quantitative trait loci detected in cell lines are often present in primary tissues.

Bullaughey K, Chavarria CI, Coop G, Gilad Y.

Hum Mol Genet. 2009 Nov 15;18(22):4296-303. doi: 10.1093/hmg/ddp382. Epub 2009 Aug 11.


The role of geography in human adaptation.

Coop G, Pickrell JK, Novembre J, Kudaravalli S, Li J, Absher D, Myers RM, Cavalli-Sforza LL, Feldman MW, Pritchard JK.

PLoS Genet. 2009 Jun;5(6):e1000500. doi: 10.1371/journal.pgen.1000500. Epub 2009 Jun 5.


An approximate likelihood for genetic data under a model with recombination and population splitting.

Davison D, Pritchard JK, Coop G.

Theor Popul Biol. 2009 Jun;75(4):331-45. doi: 10.1016/j.tpb.2009.04.001. Epub 2009 Apr 9.


Signals of recent positive selection in a worldwide sample of human populations.

Pickrell JK, Coop G, Novembre J, Kudaravalli S, Li JZ, Absher D, Srinivasan BS, Barsh GS, Myers RM, Feldman MW, Pritchard JK.

Genome Res. 2009 May;19(5):826-37. doi: 10.1101/gr.087577.108. Epub 2009 Mar 23.


Using population mixtures to optimize the utility of genomic databases: linkage disequilibrium and association study design in India.

Pemberton TJ, Jakobsson M, Conrad DF, Coop G, Wall JD, Pritchard JK, Patel PI, Rosenberg NA.

Ann Hum Genet. 2008 Jul;72(Pt 4):535-46. doi: 10.1111/j.1469-1809.2008.00457.x. Epub 2007 May 30.


The timing of selection at the human FOXP2 gene.

Coop G, Bullaughey K, Luca F, Przeworski M.

Mol Biol Evol. 2008 Jul;25(7):1257-9. doi: 10.1093/molbev/msn091. Epub 2008 Apr 15.



Shimizu KK, Reininga JM, Caicedo AL, Mays CA, Moore RC, Olsen KM, Ruzsa S, Coop G, Bustamante CD, Purugganan MD.

Science. 2008 Apr 11;320(5873):176. doi: 10.1126/science.320.5873.176a. No abstract available.


Adaptations to climate in candidate genes for common metabolic disorders.

Hancock AM, Witonsky DB, Gordon AS, Eshel G, Pritchard JK, Coop G, Di Rienzo A.

PLoS Genet. 2008 Feb;4(2):e32. doi: 10.1371/journal.pgen.0040032.

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