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Items: 1 to 50 of 75

1.

The first horse herders and the impact of early Bronze Age steppe expansions into Asia.

de Barros Damgaard P, Martiniano R, Kamm J, Moreno-Mayar JV, Kroonen G, Peyrot M, Barjamovic G, Rasmussen S, Zacho C, Baimukhanov N, Zaibert V, Merz V, Biddanda A, Merz I, Loman V, Evdokimov V, Usmanova E, Hemphill B, Seguin-Orlando A, Yediay FE, Ullah I, Sjögren KG, Iversen KH, Choin J, de la Fuente C, Ilardo M, Schroeder H, Moiseyev V, Gromov A, Polyakov A, Omura S, Senyurt SY, Ahmad H, McKenzie C, Margaryan A, Hameed A, Samad A, Gul N, Khokhar MH, Goriunova OI, Bazaliiskii VI, Novembre J, Weber AW, Orlando L, Allentoft ME, Nielsen R, Kristiansen K, Sikora M, Outram AK, Durbin R, Willerslev E.

Science. 2018 Jun 29;360(6396). pii: eaar7711. doi: 10.1126/science.aar7711. Epub 2018 May 9.

PMID:
29743352
2.

Natural Selection and Origin of a Melanistic Allele in North American Gray Wolves.

Schweizer RM, Durvasula A, Smith J, Vohr SH, Stahler DR, Galaverni M, Thalmann O, Smith DW, Randi E, Ostrander EA, Green RE, Lohmueller KE, Novembre J, Wayne RK.

Mol Biol Evol. 2018 May 1;35(5):1190-1209. doi: 10.1093/molbev/msy031.

PMID:
29688543
3.

Using pseudoalignment and base quality to accurately quantify microbial community composition.

Reppell M, Novembre J.

PLoS Comput Biol. 2018 Apr 16;14(4):e1006096. doi: 10.1371/journal.pcbi.1006096. eCollection 2018 Apr.

4.

Tread Lightly Interpreting Polygenic Tests of Selection.

Novembre J, Barton NH.

Genetics. 2018 Apr;208(4):1351-1355. doi: 10.1534/genetics.118.300786. No abstract available. Erratum in: Genetics. 2018 Jun;209(2):627.

5.

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.

6.

Similar genomic proportions of copy number variation within gray wolves and modern dog breeds inferred from whole genome sequencing.

Serres-Armero A, Povolotskaya IS, Quilez J, Ramirez O, Santpere G, Kuderna LFK, Hernandez-Rodriguez J, Fernandez-Callejo M, Gomez-Sanchez D, Freedman AH, Fan Z, Novembre J, Navarro A, Boyko A, Wayne R, Vilà C, Lorente-Galdos B, Marques-Bonet T.

BMC Genomics. 2017 Dec 19;18(1):977. doi: 10.1186/s12864-017-4318-x.

7.

Correction: A longitudinal cline characterizes the genetic structure of human populations in the Tibetan plateau.

Jeong C, Peter BM, Basnyat B, Neupane M, Beall CM, Childs G, Craig SR, Novembre J, Di Rienzo A.

PLoS One. 2017 Aug 10;12(8):e0183407. doi: 10.1371/journal.pone.0183407. eCollection 2017.

8.

A longitudinal cline characterizes the genetic structure of human populations in the Tibetan plateau.

Jeong C, Peter BM, Basnyat B, Neupane M, Beall CM, Childs G, Craig SR, Novembre J, Di Rienzo A.

PLoS One. 2017 Apr 27;12(4):e0175885. doi: 10.1371/journal.pone.0175885. eCollection 2017. Erratum in: PLoS One. 2017 Aug 10;12 (8):e0183407.

9.

Overexpression of the Cytokine BAFF and Autoimmunity Risk.

Steri M, Orrù V, Idda ML, Pitzalis M, Pala M, Zara I, Sidore C, Faà V, Floris M, Deiana M, Asunis I, Porcu E, Mulas A, Piras MG, Lobina M, Lai S, Marongiu M, Serra V, Marongiu M, Sole G, Busonero F, Maschio A, Cusano R, Cuccuru G, Deidda F, Poddie F, Farina G, Dei M, Virdis F, Olla S, Satta MA, Pani M, Delitala A, Cocco E, Frau J, Coghe G, Lorefice L, Fenu G, Ferrigno P, Ban M, Barizzone N, Leone M, Guerini FR, Piga M, Firinu D, Kockum I, Lima Bomfim I, Olsson T, Alfredsson L, Suarez A, Carreira PE, Castillo-Palma MJ, Marcus JH, Congia M, Angius A, Melis M, Gonzalez A, Alarcón Riquelme ME, da Silva BM, Marchini M, Danieli MG, Del Giacco S, Mathieu A, Pani A, Montgomery SB, Rosati G, Hillert J, Sawcer S, D'Alfonso S, Todd JA, Novembre J, Abecasis GR, Whalen MB, Marrosu MG, Meloni A, Sanna S, Gorospe M, Schlessinger D, Fiorillo E, Zoledziewska M, Cucca F.

N Engl J Med. 2017 Apr 27;376(17):1615-1626. doi: 10.1056/NEJMoa1610528.

10.

Population- and individual-specific regulatory variation in Sardinia.

Pala M, Zappala Z, Marongiu M, Li X, Davis JR, Cusano R, Crobu F, Kukurba KR, Gloudemans MJ, Reinier F, Berutti R, Piras MG, Mulas A, Zoledziewska M, Marongiu M, Sorokin EP, Hess GT, Smith KS, Busonero F, Maschio A, Steri M, Sidore C, Sanna S, Fiorillo E, Bassik MC, Sawcer SJ, Battle A, Novembre J, Jones C, Angius A, Abecasis GR, Schlessinger D, Cucca F, Montgomery SB.

Nat Genet. 2017 May;49(5):700-707. doi: 10.1038/ng.3840. Epub 2017 Apr 10.

11.

A Temporal Perspective on the Interplay of Demography and Selection on Deleterious Variation in Humans.

Koch E, Novembre J.

G3 (Bethesda). 2017 Mar 10;7(3):1027-1037. doi: 10.1534/g3.117.039651.

12.

Reconstructing genetic history of Siberian and Northeastern European populations.

Wong EH, Khrunin A, Nichols L, Pushkarev D, Khokhrin D, Verbenko D, Evgrafov O, Knowles J, Novembre J, Limborska S, Valouev A.

Genome Res. 2017 Jan;27(1):1-14. doi: 10.1101/gr.202945.115. Epub 2016 Dec 13.

13.

Chimpanzee genomic diversity reveals ancient admixture with bonobos.

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, Kuderna LF, Casals F, Angedakin S, Arandjelovic M, Boesch C, Kühl H, Vigilant L, Langergraber K, Novembre J, Gut M, Gut I, Navarro A, Carlsen F, Andrés AM, Siegismund HR, Scally A, Excoffier L, Tyler-Smith C, Castellano S, Xue Y, Hvilsom C, Marques-Bonet T.

Science. 2016 Oct 28;354(6311):477-481. Epub 2016 Oct 27.

14.

Visualizing the geography of genetic variants.

Marcus JH, Novembre J.

Bioinformatics. 2017 Feb 15;33(4):594-595. doi: 10.1093/bioinformatics/btw643.

15.

Pritchard, Stephens, and Donnelly on Population Structure.

Novembre J.

Genetics. 2016 Oct;204(2):391-393. Review. No abstract available.

16.

Recent advances in the study of fine-scale population structure in humans.

Novembre J, Peter BM.

Curr Opin Genet Dev. 2016 Dec;41:98-105. doi: 10.1016/j.gde.2016.08.007. Epub 2016 Sep 20. Review.

17.

Demographically-Based Evaluation of Genomic Regions under Selection in Domestic Dogs.

Freedman AH, Schweizer RM, Ortega-Del Vecchyo D, Han E, Davis BW, Gronau I, Silva PM, Galaverni M, Fan Z, Marx P, Lorente-Galdos B, Ramirez O, Hormozdiari F, Alkan C, Vilà C, Squire K, Geffen E, Kusak J, Boyko AR, Parker HG, Lee C, Tadigotla V, Siepel A, Bustamante CD, Harkins TT, Nelson SF, Marques-Bonet T, Ostrander EA, Wayne RK, Novembre J.

PLoS Genet. 2016 Mar 4;12(3):e1005851. doi: 10.1371/journal.pgen.1005851. eCollection 2016 Mar.

18.

Conflation of Short Identity-by-Descent Segments Bias Their Inferred Length Distribution.

Chiang CW, Ralph P, Novembre J.

G3 (Bethesda). 2016 May 3;6(5):1287-96. doi: 10.1534/g3.116.027581.

19.

Visualizing spatial population structure with estimated effective migration surfaces.

Petkova D, Novembre J, Stephens M.

Nat Genet. 2016 Jan;48(1):94-100. doi: 10.1038/ng.3464. Epub 2015 Dec 7.

20.

Targeted capture and resequencing of 1040 genes reveal environmentally driven functional variation in grey wolves.

Schweizer RM, Robinson J, Harrigan R, Silva P, Galverni M, Musiani M, Green RE, Novembre J, Wayne RK.

Mol Ecol. 2016 Jan;25(1):357-79. doi: 10.1111/mec.13467. Epub 2015 Dec 24.

PMID:
26562361
21.

Genome sequencing elucidates Sardinian genetic architecture and augments association analyses for lipid and blood inflammatory markers.

Sidore C, Busonero F, Maschio A, Porcu E, Naitza S, Zoledziewska M, Mulas A, Pistis G, Steri M, Danjou F, Kwong A, Ortega Del Vecchyo VD, Chiang CWK, Bragg-Gresham J, Pitzalis M, Nagaraja R, Tarrier B, Brennan C, Uzzau S, Fuchsberger C, Atzeni R, Reinier F, Berutti R, Huang J, Timpson NJ, Toniolo D, Gasparini P, Malerba G, Dedoussis G, Zeggini E, Soranzo N, Jones C, Lyons R, Angius A, Kang HM, Novembre J, Sanna S, Schlessinger D, Cucca F, Abecasis GR.

Nat Genet. 2015 Nov;47(11):1272-1281. doi: 10.1038/ng.3368. Epub 2015 Sep 14.

22.

Height-reducing variants and selection for short stature in Sardinia.

Zoledziewska M, Sidore C, Chiang CWK, Sanna S, Mulas A, Steri M, Busonero F, Marcus JH, Marongiu M, Maschio A, Ortega Del Vecchyo D, Floris M, Meloni A, Delitala A, Concas MP, Murgia F, Biino G, Vaccargiu S, Nagaraja R, Lohmueller KE; UK10K consortium, Timpson NJ, Soranzo N, Tachmazidou I, Dedoussis G, Zeggini E; Understanding Society Scientific Group, Uzzau S, Jones C, Lyons R, Angius A, Abecasis GR, Novembre J, Schlessinger D, Cucca F.

Nat Genet. 2015 Nov;47(11):1352-1356. doi: 10.1038/ng.3403. Epub 2015 Sep 14.

23.

Genetic subdivision and candidate genes under selection in North American grey wolves.

Schweizer RM, vonHoldt BM, Harrigan R, Knowles JC, Musiani M, Coltman D, Novembre J, Wayne RK.

Mol Ecol. 2016 Jan;25(1):380-402. doi: 10.1111/mec.13364. Epub 2015 Nov 5.

PMID:
26333947
24.

Human evolution: ancient DNA steps into the language debate.

Novembre J.

Nature. 2015 Jun 11;522(7555):164-5. doi: 10.1038/522164a. No abstract available.

PMID:
26062506
25.

Power analysis of artificial selection experiments using efficient whole genome simulation of quantitative traits.

Kessner D, Novembre J.

Genetics. 2015 Apr;199(4):991-1005. doi: 10.1534/genetics.115.175075. Epub 2015 Feb 10.

26.

Surfing waves of data in San Diego: sophisticated analyses provide a broad view of human genetic diversity.

Reppell M, Koch E, Peter BM, Novembre J.

Genome Biol. 2014 Dec 17;15(12):562. doi: 10.1186/s13059-014-0562-4.

27.

Spatial localization of recent ancestors for admixed individuals.

Yang WY, Platt A, Chiang CW, Eskin E, Novembre J, Pasaniuc B.

G3 (Bethesda). 2014 Nov 3;4(12):2505-18. doi: 10.1534/g3.114.014274.

28.

Fast and accurate site frequency spectrum estimation from low coverage sequence data.

Han E, Sinsheimer JS, Novembre J.

Bioinformatics. 2015 Mar 1;31(5):720-7. doi: 10.1093/bioinformatics/btu725. Epub 2014 Oct 30.

29.

Demographic events and evolutionary forces shaping European genetic diversity.

Veeramah KR, Novembre J.

Cold Spring Harb Perspect Biol. 2014 Jul 24;6(9):a008516. doi: 10.1101/cshperspect.a008516. Review.

30.

Variations on a common STRUCTURE: new algorithms for a valuable model.

Novembre J.

Genetics. 2014 Jul;197(3):809-11. doi: 10.1534/genetics.114.166264. No abstract available.

31.

Fast spatial ancestry via flexible allele frequency surfaces.

Rañola JM, Novembre J, Lange K.

Bioinformatics. 2014 Oct 15;30(20):2915-22. doi: 10.1093/bioinformatics/btu418. Epub 2014 Jul 9.

32.

Derived immune and ancestral pigmentation alleles in a 7,000-year-old Mesolithic European.

Olalde I, Allentoft ME, Sánchez-Quinto F, Santpere G, Chiang CW, DeGiorgio M, Prado-Martinez J, Rodríguez JA, Rasmussen S, Quilez J, Ramírez O, Marigorta UM, Fernández-Callejo M, Prada ME, Encinas JM, Nielsen R, Netea MG, Novembre J, Sturm RA, Sabeti P, Marquès-Bonet T, Navarro A, Willerslev E, Lalueza-Fox C.

Nature. 2014 Mar 13;507(7491):225-8. doi: 10.1038/nature12960. Epub 2014 Jan 26.

33.

Genome sequencing highlights the dynamic early history of dogs.

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, Squire K, Geffen E, Kusak J, Boyko AR, Parker HG, Lee C, Tadigotla V, Wilton A, Siepel A, Bustamante CD, Harkins TT, Nelson SF, Ostrander EA, Marques-Bonet T, Wayne RK, Novembre J.

PLoS Genet. 2014 Jan;10(1):e1004016. doi: 10.1371/journal.pgen.1004016. Epub 2014 Jan 16. Erratum in: PLoS Genet. 2014 Aug;10(8):e1004631. Wilton, Alan [added].

34.

Analysis of rare variant population structure in Europeans explains differential stratification of gene-based tests.

Zawistowski M, Reppell M, Wegmann D, St Jean PL, Ehm MG, Nelson MR, Novembre J, Zöllner S.

Eur J Hum Genet. 2014 Sep;22(9):1137-44. doi: 10.1038/ejhg.2013.297. Epub 2014 Jan 8.

35.

forqs: forward-in-time simulation of recombination, quantitative traits and selection.

Kessner D, Novembre J.

Bioinformatics. 2014 Feb 15;30(4):576-7. doi: 10.1093/bioinformatics/btt712. Epub 2013 Dec 10.

36.

Characterizing bias in population genetic inferences from low-coverage sequencing data.

Han E, Sinsheimer JS, Novembre J.

Mol Biol Evol. 2014 Mar;31(3):723-35. doi: 10.1093/molbev/mst229. Epub 2013 Nov 27.

37.

The influence of genomic context on mutation patterns in the human genome inferred from rare variants.

Schaibley VM, Zawistowski M, Wegmann D, Ehm MG, Nelson MR, St Jean PL, Abecasis GR, Novembre J, Zöllner S, Li JZ.

Genome Res. 2013 Dec;23(12):1974-84. doi: 10.1101/gr.154971.113. Epub 2013 Aug 29.

38.

Novel statistical methods for integrating genetic and stable isotope data to infer individual-level migratory connectivity.

Rundel CW, Wunder MB, Alvarado AH, Ruegg KC, Harrigan R, Schuh A, Kelly JF, Siegel RB, DeSante DF, Smith TB, Novembre J.

Mol Ecol. 2013 Aug;22(16):4163-4176. doi: 10.1111/mec.12393. Epub 2013 Jul 30.

PMID:
23906339
39.

Commentary on Sokal, Oden, and Thomson's "a problem with synthetic maps" (1999).

Novembre J.

Hum Biol. 2012 Oct;84(5):623-6. No abstract available.

PMID:
23526348
40.

Maximum likelihood estimation of frequencies of known haplotypes from pooled sequence data.

Kessner D, Turner TL, Novembre J.

Mol Biol Evol. 2013 May;30(5):1145-58. doi: 10.1093/molbev/mst016. Epub 2013 Jan 30.

41.

A new era of human population genetics.

Platt A, Novembre J.

Genome Biol. 2012 Dec 26;13(12):182. doi: 10.1186/gb-2012-13-12-182.

42.

A model-based approach for analysis of spatial structure in genetic data.

Yang WY, Novembre J, Eskin E, Halperin E.

Nat Genet. 2012 May 20;44(6):725-31. doi: 10.1038/ng.2285.

43.

An abundance of rare functional variants in 202 drug target genes sequenced in 14,002 people.

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, Zhang Y, Li J, Li Y, Li L, Woollard P, Topp S, Hall MD, Nangle K, Wang J, Abecasis G, Cardon LR, Zöllner S, Whittaker JC, Chissoe SL, Novembre J, Mooser V.

Science. 2012 Jul 6;337(6090):100-4. doi: 10.1126/science.1217876. Epub 2012 May 17.

44.

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.

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, Nelson MR, Mooser VE.

Hum Mutat. 2012 Jul;33(7):1087-98. doi: 10.1002/humu.22075. Epub 2012 Apr 4.

45.

The ecology of emerging infectious diseases in migratory birds: an assessment of the role of climate change and priorities for future research.

Fuller T, Bensch S, Müller I, Novembre J, Pérez-Tris J, Ricklefs RE, Smith TB, Waldenström J.

Ecohealth. 2012 Mar;9(1):80-8. doi: 10.1007/s10393-012-0750-1. Epub 2012 Feb 25. Review.

PMID:
22366978
46.

Human population structure and the adaptive response to pathogen-induced selection pressures.

Novembre J, Han E.

Philos Trans R Soc Lond B Biol Sci. 2012 Mar 19;367(1590):878-86. doi: 10.1098/rstb.2011.0305. Review.

47.

Perspectives on human population structure at the cusp of the sequencing era.

Novembre J, Ramachandran S.

Annu Rev Genomics Hum Genet. 2011;12:245-74. doi: 10.1146/annurev-genom-090810-183123. Review.

PMID:
21801023
48.

Population-genetic comparison of the Sorbian isolate population in Germany with the German KORA population using genome-wide SNP arrays.

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.

BMC Genet. 2011 Jul 28;12:67. doi: 10.1186/1471-2156-12-67.

49.

Recombination rates in admixed individuals identified by ancestry-based inference.

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, Barnes KC, Becker DM, Freimer NB, Novembre J.

Nat Genet. 2011 Jul 20;43(9):847-53. doi: 10.1038/ng.894.

PMID:
21775992
50.

A genome-wide perspective on the evolutionary history of enigmatic wolf-like canids.

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, Bustamante CD, Ostrander EA, Novembre J, Wayne RK.

Genome Res. 2011 Aug;21(8):1294-305. doi: 10.1101/gr.116301.110. Epub 2011 May 12.

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