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Items: 26

1.

Multiple episodes of interbreeding between Neanderthal and modern humans.

Villanea FA, Schraiber JG.

Nat Ecol Evol. 2019 Jan;3(1):39-44. doi: 10.1038/s41559-018-0735-8. Epub 2018 Nov 26.

PMID:
30478305
2.

Mito-nuclear discordance across a recent contact zone for California voles.

Lin D, Bi K, Conroy CJ, Lacey EA, Schraiber JG, Bowie RCK.

Ecol Evol. 2018 May 24;8(12):6226-6241. doi: 10.1002/ece3.4129. eCollection 2018 Jun.

3.

A multispecies coalescent model for quantitative traits.

Mendes FK, Fuentes-González JA, Schraiber JG, Hahn MW.

Elife. 2018 Aug 14;7. pii: e36482. doi: 10.7554/eLife.36482.

4.

Origins and genetic legacies of the Caribbean Taino.

Schroeder H, Sikora M, Gopalakrishnan S, Cassidy LM, Maisano Delser P, Sandoval Velasco M, Schraiber JG, Rasmussen S, Homburger JR, Ávila-Arcos MC, Allentoft ME, Moreno-Mayar JV, Renaud G, Gómez-Carballa A, Laffoon JE, Hopkins RJA, Higham TFG, Carr RS, Schaffer WC, Day JS, Hoogland M, Salas A, Bustamante CD, Nielsen R, Bradley DG, Hofman CL, Willerslev E.

Proc Natl Acad Sci U S A. 2018 Mar 6;115(10):2341-2346. doi: 10.1073/pnas.1716839115. Epub 2018 Feb 20.

5.

Assessing the Relationship of Ancient and Modern Populations.

Schraiber JG.

Genetics. 2018 Jan;208(1):383-398. doi: 10.1534/genetics.117.300448. Epub 2017 Nov 22.

6.

Pulsed evolution shaped modern vertebrate body sizes.

Landis MJ, Schraiber JG.

Proc Natl Acad Sci U S A. 2017 Dec 12;114(50):13224-13229. doi: 10.1073/pnas.1710920114. Epub 2017 Nov 7.

7.

Archaic Hominin Admixture Facilitated Adaptation to Out-of-Africa Environments.

Gittelman RM, Schraiber JG, Vernot B, Mikacenic C, Wurfel MM, Akey JM.

Curr Biol. 2016 Dec 19;26(24):3375-3382. doi: 10.1016/j.cub.2016.10.041. Epub 2016 Nov 10.

8.

Emergence of a Homo sapiens-specific gene family and chromosome 16p11.2 CNV susceptibility.

Nuttle X, Giannuzzi G, Duyzend MH, Schraiber JG, Narvaiza I, Sudmant PH, Penn O, Chiatante G, Malig M, Huddleston J, Benner C, Camponeschi F, Ciofi-Baffoni S, Stessman HA, Marchetto MC, Denman L, Harshman L, Baker C, Raja A, Penewit K, Janke N, Tang WJ, Ventura M, Banci L, Antonacci F, Akey JM, Amemiya CT, Gage FH, Reymond A, Eichler EE.

Nature. 2016 Aug 11;536(7615):205-9. Epub 2016 Aug 3.

9.

Bayesian Inference of Natural Selection from Allele Frequency Time Series.

Schraiber JG, Evans SN, Slatkin M.

Genetics. 2016 May;203(1):493-511. doi: 10.1534/genetics.116.187278. Epub 2016 Mar 23.

10.

Excavating Neandertal and Denisovan DNA from the genomes of Melanesian individuals.

Vernot B, Tucci S, Kelso J, Schraiber JG, Wolf AB, Gittelman RM, Dannemann M, Grote S, McCoy RC, Norton H, Scheinfeldt LB, Merriwether DA, Koki G, Friedlaender JS, Wakefield J, Pääbo S, Akey JM.

Science. 2016 Apr 8;352(6282):235-9. doi: 10.1126/science.aad9416. Epub 2016 Mar 17.

11.

Methods and models for unravelling human evolutionary history.

Schraiber JG, Akey JM.

Nat Rev Genet. 2015 Dec;16(12):727-40. doi: 10.1038/nrg4005. Epub 2015 Nov 10. Review.

PMID:
26553329
12.

Evidence of long-term gene flow and selection during domestication from analyses of Eurasian wild and domestic pig genomes.

Frantz LA, Schraiber JG, Madsen O, Megens HJ, Cagan A, Bosse M, Paudel Y, Crooijmans RP, Larson G, Groenen MA.

Nat Genet. 2015 Oct;47(10):1141-8. doi: 10.1038/ng.3394. Epub 2015 Aug 31.

PMID:
26323058
13.

Sensitivity of quantitative traits to mutational effects and number of loci.

Schraiber JG, Landis MJ.

Theor Popul Biol. 2015 Jun;102:85-93. doi: 10.1016/j.tpb.2015.03.005. Epub 2015 Mar 31.

14.

Evolution of Tibetan wild boars.

Frantz LA, Madsen O, Megens HJ, Schraiber JG, Paudel Y, Bosse M, Crooijmans RP, Larson G, Groenen MA.

Nat Genet. 2015 Mar;47(3):188-9. doi: 10.1038/ng.3197. No abstract available.

15.

Approximation to the distribution of fitness effects across functional categories in human segregating polymorphisms.

Racimo F, Schraiber JG.

PLoS Genet. 2014 Nov 6;10(11):e1004697. doi: 10.1371/journal.pgen.1004697. eCollection 2014 Nov.

16.

Ancient human genomes suggest three ancestral populations for present-day Europeans.

Lazaridis I, Patterson N, Mittnik A, Renaud G, Mallick S, Kirsanow K, Sudmant PH, Schraiber JG, Castellano S, Lipson M, Berger B, Economou C, Bollongino R, Fu Q, Bos KI, Nordenfelt S, Li H, de Filippo C, Prüfer K, Sawyer S, Posth C, Haak W, Hallgren F, Fornander E, Rohland N, Delsate D, Francken M, Guinet JM, Wahl J, Ayodo G, Babiker HA, Bailliet G, Balanovska E, Balanovsky O, Barrantes R, Bedoya G, Ben-Ami H, Bene J, Berrada F, Bravi CM, Brisighelli F, Busby GB, Cali F, Churnosov M, Cole DE, Corach D, Damba L, van Driem G, Dryomov S, Dugoujon JM, Fedorova SA, Gallego Romero I, Gubina M, Hammer M, Henn BM, Hervig T, Hodoglugil U, Jha AR, Karachanak-Yankova S, Khusainova R, Khusnutdinova E, Kittles R, Kivisild T, Klitz W, Kučinskas V, Kushniarevich A, Laredj L, Litvinov S, Loukidis T, Mahley RW, Melegh B, Metspalu E, Molina J, Mountain J, Näkkäläjärvi K, Nesheva D, Nyambo T, Osipova L, Parik J, Platonov F, Posukh O, Romano V, Rothhammer F, Rudan I, Ruizbakiev R, Sahakyan H, Sajantila A, Salas A, Starikovskaya EB, Tarekegn A, Toncheva D, Turdikulova S, Uktveryte I, Utevska O, Vasquez R, Villena M, Voevoda M, Winkler CA, Yepiskoposyan L, Zalloua P, Zemunik T, Cooper A, Capelli C, Thomas MG, Ruiz-Linares A, Tishkoff SA, Singh L, Thangaraj K, Villems R, Comas D, Sukernik R, Metspalu M, Meyer M, Eichler EE, Burger J, Slatkin M, Pääbo S, Kelso J, Reich D, Krause J.

Nature. 2014 Sep 18;513(7518):409-13. doi: 10.1038/nature13673.

17.

A path integral formulation of the Wright-Fisher process with genic selection.

Schraiber JG.

Theor Popul Biol. 2014 Mar;92:30-5. doi: 10.1016/j.tpb.2013.11.002. Epub 2013 Nov 21.

18.

Inferring evolutionary histories of pathway regulation from transcriptional profiling data.

Schraiber JG, Mostovoy Y, Hsu TY, Brem RB.

PLoS Comput Biol. 2013;9(10):e1003255. doi: 10.1371/journal.pcbi.1003255. Epub 2013 Oct 10.

19.

Genome sequencing reveals fine scale diversification and reticulation history during speciation in Sus.

Frantz LA, Schraiber JG, Madsen O, Megens HJ, Bosse M, Paudel Y, Semiadi G, Meijaard E, Li N, Crooijmans RP, Archibald AL, Slatkin M, Schook LB, Larson G, Groenen MA.

Genome Biol. 2013;14(9):R107.

20.

Analysis and rejection sampling of Wright-Fisher diffusion bridges.

Schraiber JG, Griffiths RC, Evans SN.

Theor Popul Biol. 2013 Nov;89:64-74. doi: 10.1016/j.tpb.2013.08.005. Epub 2013 Aug 31.

21.

Analyses of pig genomes provide insight into porcine demography and evolution.

Groenen MA, Archibald AL, Uenishi H, Tuggle CK, Takeuchi Y, Rothschild MF, Rogel-Gaillard C, Park C, Milan D, Megens HJ, Li S, Larkin DM, Kim H, Frantz LA, Caccamo M, Ahn H, Aken BL, Anselmo A, Anthon C, Auvil L, Badaoui B, Beattie CW, Bendixen C, Berman D, Blecha F, Blomberg J, Bolund L, Bosse M, Botti S, Bujie Z, Bystrom M, Capitanu B, Carvalho-Silva D, Chardon P, Chen C, Cheng R, Choi SH, Chow W, Clark RC, Clee C, Crooijmans RP, Dawson HD, Dehais P, De Sapio F, Dibbits B, Drou N, Du ZQ, Eversole K, Fadista J, Fairley S, Faraut T, Faulkner GJ, Fowler KE, Fredholm M, Fritz E, Gilbert JG, Giuffra E, Gorodkin J, Griffin DK, Harrow JL, Hayward A, Howe K, Hu ZL, Humphray SJ, Hunt T, Hornshøj H, Jeon JT, Jern P, Jones M, Jurka J, Kanamori H, Kapetanovic R, Kim J, Kim JH, Kim KW, Kim TH, Larson G, Lee K, Lee KT, Leggett R, Lewin HA, Li Y, Liu W, Loveland JE, Lu Y, Lunney JK, Ma J, Madsen O, Mann K, Matthews L, McLaren S, Morozumi T, Murtaugh MP, Narayan J, Nguyen DT, Ni P, Oh SJ, Onteru S, Panitz F, Park EW, Park HS, Pascal G, Paudel Y, Perez-Enciso M, Ramirez-Gonzalez R, Reecy JM, Rodriguez-Zas S, Rohrer GA, Rund L, Sang Y, Schachtschneider K, Schraiber JG, Schwartz J, Scobie L, Scott C, Searle S, Servin B, Southey BR, Sperber G, Stadler P, Sweedler JV, Tafer H, Thomsen B, Wali R, Wang J, Wang J, White S, Xu X, Yerle M, Zhang G, Zhang J, Zhang J, Zhao S, Rogers J, Churcher C, Schook LB.

Nature. 2012 Nov 15;491(7424):393-8. doi: 10.1038/nature11622.

22.

Genomic tests of variation in inbreeding among individuals and among chromosomes.

Schraiber JG, Shih S, Slatkin M.

Genetics. 2012 Dec;192(4):1477-82. doi: 10.1534/genetics.112.145367. Epub 2012 Oct 10.

23.

Phylogenetic analysis using Lévy processes: finding jumps in the evolution of continuous traits.

Landis MJ, Schraiber JG, Liang M.

Syst Biol. 2013 Mar;62(2):193-204. doi: 10.1093/sysbio/sys086. Epub 2012 Oct 3.

24.

A high-coverage genome sequence from an archaic Denisovan individual.

Meyer M, Kircher M, Gansauge MT, Li H, Racimo F, Mallick S, Schraiber JG, Jay F, Prüfer K, de Filippo C, Sudmant PH, Alkan C, Fu Q, Do R, Rohland N, Tandon A, Siebauer M, Green RE, Bryc K, Briggs AW, Stenzel U, Dabney J, Shendure J, Kitzman J, Hammer MF, Shunkov MV, Derevianko AP, Patterson N, Andrés AM, Eichler EE, Slatkin M, Reich D, Kelso J, Pääbo S.

Science. 2012 Oct 12;338(6104):222-6. doi: 10.1126/science.1224344. Epub 2012 Aug 30.

25.

Evolution of a membrane protein regulon in Saccharomyces.

Martin HC, Roop JI, Schraiber JG, Hsu TY, Brem RB.

Mol Biol Evol. 2012 Jul;29(7):1747-56. doi: 10.1093/molbev/mss017. Epub 2012 Jan 20.

26.

Constraints on the use of lifespan-shortening Wolbachia to control dengue fever.

Schraiber JG, Kaczmarczyk AN, Kwok R, Park M, Silverstein R, Rutaganira FU, Aggarwal T, Schwemmer MA, Hom CL, Grosberg RK, Schreiber SJ.

J Theor Biol. 2012 Mar 21;297:26-32. doi: 10.1016/j.jtbi.2011.12.006. Epub 2011 Dec 16.

PMID:
22192469

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