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Items: 1 to 50 of 224

1.

Gene connectivity and enzyme evolution in the human metabolic network.

Dobon B, Montanucci L, Peretó J, Bertranpetit J, Laayouni H.

Biol Direct. 2019 Sep 3;14(1):17. doi: 10.1186/s13062-019-0248-7.

2.

Is there adaptation in the human genome for taste perception and phase I biotransformation?

Dobon B, Rossell C, Walsh S, Bertranpetit J.

BMC Evol Biol. 2019 Jan 31;19(1):39. doi: 10.1186/s12862-019-1366-7.

3.

Approximate Bayesian computation with deep learning supports a third archaic introgression in Asia and Oceania.

Mondal M, Bertranpetit J, Lao O.

Nat Commun. 2019 Jan 16;10(1):246. doi: 10.1038/s41467-018-08089-7.

4.

Influence of pathway topology and functional class on the molecular evolution of human metabolic genes.

Montanucci L, Laayouni H, Dobon B, Keys KL, Bertranpetit J, Peretó J.

PLoS One. 2018 Dec 14;13(12):e0208782. doi: 10.1371/journal.pone.0208782. eCollection 2018.

5.

Reply to 'No evidence for unknown archaic ancestry in South Asia'.

Mondal M, Casals F, Majumder PP, Bertranpetit J.

Nat Genet. 2018 Dec;50(12):1637-1639. doi: 10.1038/s41588-018-0280-z. No abstract available.

PMID:
30478438
6.

Genomes reveal marked differences in the adaptive evolution between orangutan species.

Mattle-Greminger MP, Bilgin Sonay T, Nater A, Pybus M, Desai T, de Valles G, Casals F, Scally A, Bertranpetit J, Marques-Bonet T, van Schaik CP, Anisimova M, Krützen M.

Genome Biol. 2018 Nov 15;19(1):193. doi: 10.1186/s13059-018-1562-6.

7.

Selection in the Introgressed Regions of the Chimpanzee Genome.

Nye J, Laayouni H, Kuhlwilm M, Mondal M, Marques-Bonet T, Bertranpetit J.

Genome Biol Evol. 2018 Apr 1;10(4):1132-1138. doi: 10.1093/gbe/evy077.

8.

Morphometric, Behavioral, and Genomic Evidence for a New Orangutan Species.

Nater A, Mattle-Greminger MP, Nurcahyo A, Nowak MG, de Manuel M, Desai T, Groves C, Pybus M, Sonay TB, Roos C, Lameira AR, Wich SA, Askew J, Davila-Ross M, Fredriksson G, de Valles G, Casals F, Prado-Martinez J, Goossens B, Verschoor EJ, Warren KS, Singleton I, Marques DA, Pamungkas J, Perwitasari-Farajallah D, Rianti P, Tuuga A, Gut IG, Gut M, Orozco-terWengel P, van Schaik CP, Bertranpetit J, Anisimova M, Scally A, Marques-Bonet T, Meijaard E, Krützen M.

Curr Biol. 2017 Nov 20;27(22):3576-3577. doi: 10.1016/j.cub.2017.11.020. No abstract available.

9.

Morphometric, Behavioral, and Genomic Evidence for a New Orangutan Species.

Nater A, Mattle-Greminger MP, Nurcahyo A, Nowak MG, de Manuel M, Desai T, Groves C, Pybus M, Sonay TB, Roos C, Lameira AR, Wich SA, Askew J, Davila-Ross M, Fredriksson G, de Valles G, Casals F, Prado-Martinez J, Goossens B, Verschoor EJ, Warren KS, Singleton I, Marques DA, Pamungkas J, Perwitasari-Farajallah D, Rianti P, Tuuga A, Gut IG, Gut M, Orozco-terWengel P, van Schaik CP, Bertranpetit J, Anisimova M, Scally A, Marques-Bonet T, Meijaard E, Krützen M.

Curr Biol. 2017 Nov 20;27(22):3487-3498.e10. doi: 10.1016/j.cub.2017.09.047. Epub 2017 Nov 2. Erratum in: Curr Biol. 2017 Nov 20;27(22):3576-3577.

10.

PopHuman: the human population genomics browser.

Casillas S, Mulet R, Villegas-Mirón P, Hervas S, Sanz E, Velasco D, Bertranpetit J, Laayouni H, Barbadilla A.

Nucleic Acids Res. 2018 Jan 4;46(D1):D1003-D1010. doi: 10.1093/nar/gkx943.

11.

Y-chromosomal sequences of diverse Indian populations and the ancestry of the Andamanese.

Mondal M, Bergström A, Xue Y, Calafell F, Laayouni H, Casals F, Majumder PP, Tyler-Smith C, Bertranpetit J.

Hum Genet. 2017 May;136(5):499-510. doi: 10.1007/s00439-017-1800-0. Epub 2017 Apr 25.

PMID:
28444560
12.

An assessment of a massively parallel sequencing approach for the identification of individuals from mass graves of the Spanish Civil War (1936-1939).

Calafell F, Anglada R, Bonet N, González-Ruiz M, Prats-Muñoz G, Rasal R, Lalueza-Fox C, Bertranpetit J, Malgosa A, Casals F.

Electrophoresis. 2016 Oct;37(21):2841-2847. doi: 10.1002/elps.201600180. Epub 2016 Sep 5.

PMID:
27489250
13.

Natural Selection in the Great Apes.

Cagan A, Theunert C, Laayouni H, Santpere G, Pybus M, Casals F, Prüfer K, Navarro A, Marques-Bonet T, Bertranpetit J, Andrés AM.

Mol Biol Evol. 2016 Dec;33(12):3268-3283. Epub 2016 Oct 30.

14.

Genomic analysis of Andamanese provides insights into ancient human migration into Asia and adaptation.

Mondal M, Casals F, Xu T, Dall'Olio GM, Pybus M, Netea MG, Comas D, Laayouni H, Li Q, Majumder PP, Bertranpetit J.

Nat Genet. 2016 Sep;48(9):1066-70. doi: 10.1038/ng.3621. Epub 2016 Jul 25.

PMID:
27455350
15.

A genome-wide association study identifies SLC8A3 as a susceptibility locus for ACPA-positive rheumatoid arthritis.

Julià A, González I, Fernández-Nebro A, Blanco F, Rodriguez L, González A, Cañete JD, Maymó J, Alperi-López M, Olivé A, Corominas H, Martínez-Taboada V, Erra A, Sánchez-Fernández S, Alonso A, Lopez-Lasanta M, Tortosa R, Codó L, Gelpi JL, García-Montero AC, Bertranpetit J, Absher D, Bridges SL Jr, Myers RM, Tornero J, Marsal S.

Rheumatology (Oxford). 2016 Jun;55(6):1106-11. doi: 10.1093/rheumatology/kew035. Epub 2016 Mar 15.

PMID:
26983453
16.

Functional role of positively selected amino acid substitutions in mammalian rhodopsin evolution.

Fernández-Sampedro MA, Invergo BM, Ramon E, Bertranpetit J, Garriga P.

Sci Rep. 2016 Feb 11;6:21570. doi: 10.1038/srep21570.

17.

Identification of IRX1 as a Risk Locus for Rheumatoid Factor Positivity in Rheumatoid Arthritis in a Genome-Wide Association Study.

Julià A, Blanco F, Fernández-Gutierrez B, González A, Cañete JD, Maymó J, Alperi-López M, Olivè A, Corominas H, Martínez-Taboada V, González-Álvaro I, Fernandez-Nebro A, Erra A, Sánchez-Fernández S, Alonso A, López-Lasanta M, Tortosa R, Codó L, Lluis Gelpi J, García-Montero AC, Bertranpetit J, Absher D, Myers RM, Tornero J, Marsal S.

Arthritis Rheumatol. 2016 Jun;68(6):1384-91. doi: 10.1002/art.39591.

18.

Genome-Wide Pathway Analysis Identifies Genetic Pathways Associated with Psoriasis.

Aterido A, Julià A, Ferrándiz C, Puig L, Fonseca E, Fernández-López E, Dauden E, Sánchez-Carazo JL, López-Estebaranz JL, Moreno-Ramírez D, Vanaclocha F, Herrera E, de la Cueva P, Dand N, Palau N, Alonso A, López-Lasanta M, Tortosa R, García-Montero A, Codó L, Gelpí JL, Bertranpetit J, Absher D, Capon F, Myers RM, Barker JN, Marsal S.

J Invest Dermatol. 2016 Mar;136(3):593-602. doi: 10.1016/j.jid.2015.11.026. Epub 2015 Dec 29.

19.

Dynamic sensitivity and nonlinear interactions influence the system-level evolutionary patterns of phototransduction proteins.

Invergo BM, Montanucci L, Bertranpetit J.

Proc Biol Sci. 2015 Dec 7;282(1820):20152215. doi: 10.1098/rspb.2015.2215.

20.

Origins, admixture and founder lineages in European Roma.

Martínez-Cruz B, Mendizabal I, Harmant C, de Pablo R, Ioana M, Angelicheva D, Kouvatsi A, Makukh H, Netea MG, Pamjav H, Zalán A, Tournev I, Marushiakova E, Popov V, Bertranpetit J, Kalaydjieva L, Quintana-Murci L, Comas D.

Eur J Hum Genet. 2016 Jun;24(6):937-43. doi: 10.1038/ejhg.2015.201. Epub 2015 Sep 16.

21.

Hierarchical boosting: a machine-learning framework to detect and classify hard selective sweeps in human populations.

Pybus M, Luisi P, Dall'Olio GM, Uzkudun M, Laayouni H, Bertranpetit J, Engelken J.

Bioinformatics. 2015 Dec 15;31(24):3946-52. doi: 10.1093/bioinformatics/btv493. Epub 2015 Aug 26.

PMID:
26315912
22.

The genetics of East African populations: a Nilo-Saharan component in the African genetic landscape.

Dobon B, Hassan HY, Laayouni H, Luisi P, Ricaño-Ponce I, Zhernakova A, Wijmenga C, Tahir H, Comas D, Netea MG, Bertranpetit J.

Sci Rep. 2015 May 28;5:9996. doi: 10.1038/srep09996.

23.

Recent positive selection has acted on genes encoding proteins with more interactions within the whole human interactome.

Luisi P, Alvarez-Ponce D, Pybus M, Fares MA, Bertranpetit J, Laayouni H.

Genome Biol Evol. 2015 Apr 2;7(4):1141-54. doi: 10.1093/gbe/evv055.

24.

Y-chromosome diversity in Catalan surname samples: insights into surname origin and frequency.

Solé-Morata N, Bertranpetit J, Comas D, Calafell F.

Eur J Hum Genet. 2015 Nov;23(11):1549-57. doi: 10.1038/ejhg.2015.14. Epub 2015 Feb 18.

25.

Identification of risk loci for Crohn's disease phenotypes using a genome-wide association study.

Alonso A, Domènech E, Julià A, Panés J, García-Sánchez V, Mateu PN, Gutiérrez A, Gomollón F, Mendoza JL, Garcia-Planella E, Barreiro-de Acosta M, Muñoz F, Vera M, Saro C, Esteve M, Andreu M, Chaparro M, Manyé J, Cabré E, López-Lasanta M, Tortosa R, Gelpí JL, García-Montero AC, Bertranpetit J, Absher D, Myers RM, Marsal S, Gisbert JP.

Gastroenterology. 2015 Apr;148(4):794-805. doi: 10.1053/j.gastro.2014.12.030. Epub 2014 Dec 31.

PMID:
25557950
26.

An integrative evolution theory of histo-blood group ABO and related genes.

Yamamoto F, Cid E, Yamamoto M, Saitou N, Bertranpetit J, Blancher A.

Sci Rep. 2014 Oct 13;4:6601. doi: 10.1038/srep06601.

27.

VCF2Networks: applying genotype networks to single-nucleotide variants data.

Dall'Olio GM, Vahdati AR, Bertranpetit J, Wagner A, Laayouni H.

Bioinformatics. 2015 Feb 1;31(3):438-9. doi: 10.1093/bioinformatics/btu650. Epub 2014 Oct 4.

28.

A genome-wide association study identifies a novel locus at 6q22.1 associated with ulcerative colitis.

Julià A, Domènech E, Chaparro M, García-Sánchez V, Gomollón F, Panés J, Mañosa M, Barreiro-De Acosta M, Gutiérrez A, Garcia-Planella E, Aguas M, Muñoz F, Esteve M, Mendoza JL, Vera M, Márquez L, Tortosa R, López-Lasanta M, Alonso A, Gelpí JL, García-Montero AC, Bertranpetit J, Absher D, Myers RM, Gisbert JP, Marsal S.

Hum Mol Genet. 2014 Dec 20;23(25):6927-34. doi: 10.1093/hmg/ddu398. Epub 2014 Jul 31.

PMID:
25082827
29.

Population and genomic lessons from genetic analysis of two Indian populations.

Juyal G, Mondal M, Luisi P, Laayouni H, Sood A, Midha V, Heutink P, Bertranpetit J, Thelma BK, Casals F.

Hum Genet. 2014 Oct;133(10):1273-87. doi: 10.1007/s00439-014-1462-0. Epub 2014 Jul 1.

PMID:
24980708
30.

Human genome variation and the concept of genotype networks.

Dall'Olio GM, Bertranpetit J, Wagner A, Laayouni H.

PLoS One. 2014 Jun 9;9(6):e99424. doi: 10.1371/journal.pone.0099424. eCollection 2014. Erratum in: PLoS One. 2014;9(8):e107347.

31.

Recent radiation of R-M269 and high Y-STR haplotype resemblance confirmed.

Solé-Morata N, Bertranpetit J, Comas D, Calafell F.

Ann Hum Genet. 2014 Jul;78(4):253-4. doi: 10.1111/ahg.12066. Epub 2014 May 13. No abstract available.

32.

A comprehensive model of the phototransduction cascade in mouse rod cells.

Invergo BM, Dell'Orco D, Montanucci L, Koch KW, Bertranpetit J.

Mol Biosyst. 2014 Jun;10(6):1481-9. doi: 10.1039/c3mb70584f. Epub 2014 Mar 28.

PMID:
24675755
33.

Convergent evolution in European and Rroma populations reveals pressure exerted by plague on Toll-like receptors.

Laayouni H, Oosting M, Luisi P, Ioana M, Alonso S, Ricaño-Ponce I, Trynka G, Zhernakova A, Plantinga TS, Cheng SC, van der Meer JW, Popp R, Sood A, Thelma BK, Wijmenga C, Joosten LA, Bertranpetit J, Netea MG.

Proc Natl Acad Sci U S A. 2014 Feb 18;111(7):2668-73. doi: 10.1073/pnas.1317723111. Epub 2014 Feb 3.

34.

1000 Genomes Selection Browser 1.0: a genome browser dedicated to signatures of natural selection in modern humans.

Pybus M, Dall'Olio GM, Luisi P, Uzkudun M, Carreño-Torres A, Pavlidis P, Laayouni H, Bertranpetit J, Engelken J.

Nucleic Acids Res. 2014 Jan;42(Database issue):D903-9. doi: 10.1093/nar/gkt1188. Epub 2013 Nov 25.

35.

Metabolic flux is a determinant of the evolutionary rates of enzyme-encoding genes.

Colombo M, Laayouni H, Invergo BM, Bertranpetit J, Montanucci L.

Evolution. 2014 Feb;68(2):605-13. doi: 10.1111/evo.12262. Epub 2013 Sep 19.

PMID:
24102646
36.

Great ape genetic diversity and population history.

Prado-Martinez J, Sudmant PH, Kidd JM, Li H, Kelley JL, Lorente-Galdos B, Veeramah KR, Woerner AE, O'Connor TD, Santpere G, Cagan A, Theunert C, Casals F, Laayouni H, Munch K, Hobolth A, Halager AE, Malig M, Hernandez-Rodriguez J, Hernando-Herraez I, Prüfer K, Pybus M, Johnstone L, Lachmann M, Alkan C, Twigg D, Petit N, Baker C, Hormozdiari F, Fernandez-Callejo M, Dabad M, Wilson ML, Stevison L, Camprubí C, Carvalho T, Ruiz-Herrera A, Vives L, Mele M, Abello T, Kondova I, Bontrop RE, Pusey A, Lankester F, Kiyang JA, Bergl RA, Lonsdorf E, Myers S, Ventura M, Gagneux P, Comas D, Siegismund H, Blanc J, Agueda-Calpena L, Gut M, Fulton L, Tishkoff SA, Mullikin JC, Wilson RK, Gut IG, Gonder MK, Ryder OA, Hahn BH, Navarro A, Akey JM, Bertranpetit J, Reich D, Mailund T, Schierup MH, Hvilsom C, Andrés AM, Wall JD, Bustamante CD, Hammer MF, Eichler EE, Marques-Bonet T.

Nature. 2013 Jul 25;499(7459):471-5. doi: 10.1038/nature12228. Epub 2013 Jul 3.

37.

Gene flow from North Africa contributes to differential human genetic diversity in southern Europe.

Botigué LR, Henn BM, Gravel S, Maples BK, Gignoux CR, Corona E, Atzmon G, Burns E, Ostrer H, Flores C, Bertranpetit J, Comas D, Bustamante CD.

Proc Natl Acad Sci U S A. 2013 Jul 16;110(29):11791-6. doi: 10.1073/pnas.1306223110. Epub 2013 Jun 3.

38.

The genome sequencing of an albino Western lowland gorilla reveals inbreeding in the wild.

Prado-Martinez J, Hernando-Herraez I, Lorente-Galdos B, Dabad M, Ramirez O, Baeza-Delgado C, Morcillo-Suarez C, Alkan C, Hormozdiari F, Raineri E, Estellé J, Fernandez-Callejo M, Valles M, Ritscher L, Schöneberg T, de la Calle-Mustienes E, Casillas S, Rubio-Acero R, Melé M, Engelken J, Caceres M, Gomez-Skarmeta JL, Gut M, Bertranpetit J, Gut IG, Abello T, Eichler EE, Mingarro I, Lalueza-Fox C, Navarro A, Marques-Bonet T.

BMC Genomics. 2013 May 31;14:363. doi: 10.1186/1471-2164-14-363.

39.

Exploring the rate-limiting steps in visual phototransduction recovery by bottom-up kinetic modeling.

Invergo BM, Montanucci L, Koch KW, Bertranpetit J, Dell'orco D.

Cell Commun Signal. 2013 May 21;11(1):36. doi: 10.1186/1478-811X-11-36.

40.

Genome-wide diversity in the levant reveals recent structuring by culture.

Haber M, Gauguier D, Youhanna S, Patterson N, Moorjani P, Botigué LR, Platt DE, Matisoo-Smith E, Soria-Hernanz DF, Wells RS, Bertranpetit J, Tyler-Smith C, Comas D, Zalloua PA.

PLoS Genet. 2013;9(2):e1003316. doi: 10.1371/journal.pgen.1003316. Epub 2013 Feb 28.

41.

A system-level, molecular evolutionary analysis of mammalian phototransduction.

Invergo BM, Montanucci L, Laayouni H, Bertranpetit J.

BMC Evol Biol. 2013 Feb 23;13:52. doi: 10.1186/1471-2148-13-52.

42.

A genome-wide association study on a southern European population identifies a new Crohn's disease susceptibility locus at RBX1-EP300.

Julià A, Domènech E, Ricart E, Tortosa R, García-Sánchez V, Gisbert JP, Nos Mateu P, Gutiérrez A, Gomollón F, Mendoza JL, Garcia-Planella E, Barreiro-de Acosta M, Muñoz F, Vera M, Saro C, Esteve M, Andreu M, Alonso A, López-Lasanta M, Codó L, Gelpí JL, García-Montero AC, Bertranpetit J, Absher D, Panés J, Marsal S.

Gut. 2013 Oct;62(10):1440-5. doi: 10.1136/gutjnl-2012-302865. Epub 2012 Aug 30.

PMID:
22936669
43.

Genetics. Human genetic variation, shared and private.

Casals F, Bertranpetit J.

Science. 2012 Jul 6;337(6090):39-40. doi: 10.1126/science.1224528. No abstract available.

PMID:
22767915
44.

Genomic affinities of two 7,000-year-old Iberian hunter-gatherers.

Sánchez-Quinto F, Schroeder H, Ramirez O, Avila-Arcos MC, Pybus M, Olalde I, Velazquez AM, Marcos ME, Encinas JM, Bertranpetit J, Orlando L, Gilbert MT, Lalueza-Fox C.

Curr Biol. 2012 Aug 21;22(16):1494-9. doi: 10.1016/j.cub.2012.06.005. Epub 2012 Jun 28.

45.

Distribution of events of positive selection and population differentiation in a metabolic pathway: the case of asparagine N-glycosylation.

Dall'Olio GM, Laayouni H, Luisi P, Sikora M, Montanucci L, Bertranpetit J.

BMC Evol Biol. 2012 Jun 25;12:98. doi: 10.1186/1471-2148-12-98.

46.

Genomic ancestry of North Africans supports back-to-Africa migrations.

Henn BM, Botigué LR, Gravel S, Wang W, Brisbin A, Byrnes JK, Fadhlaoui-Zid K, Zalloua PA, Moreno-Estrada A, Bertranpetit J, Bustamante CD, Comas D.

PLoS Genet. 2012 Jan;8(1):e1002397. doi: 10.1371/journal.pgen.1002397. Epub 2012 Jan 12.

47.

Network-level and population genetics analysis of the insulin/TOR signal transduction pathway across human populations.

Luisi P, Alvarez-Ponce D, Dall'Olio GM, Sikora M, Bertranpetit J, Laayouni H.

Mol Biol Evol. 2012 May;29(5):1379-92. doi: 10.1093/molbev/msr298. Epub 2011 Dec 1.

PMID:
22135191
48.

Recombination networks as genetic markers in a human variation study of the Old World.

Javed A, Melé M, Pybus M, Zalloua P, Haber M, Comas D, Netea MG, Balanovsky O, Balanovska E, Jin L, Yang Y, Arunkumar G, Pitchappan R, Bertranpetit J, Calafell F, Parida L; Genographic Consortium.

Hum Genet. 2012 Apr;131(4):601-13. doi: 10.1007/s00439-011-1104-8. Epub 2011 Oct 18.

PMID:
22006219
49.

Ten simple rules for getting help from online scientific communities.

Dall'Olio GM, Marino J, Schubert M, Keys KL, Stefan MI, Gillespie CS, Poulain P, Shameer K, Sugar R, Invergo BM, Jensen LJ, Bertranpetit J, Laayouni H.

PLoS Comput Biol. 2011 Sep;7(9):e1002202. doi: 10.1371/journal.pcbi.1002202. Epub 2011 Sep 29. No abstract available.

50.

A targeted association study of immunity genes and networks suggests novel associations with placental malaria infection.

Sikora M, Laayouni H, Menendez C, Mayor A, Bardaji A, Sigauque B, Netea MG, Casals F, Bertranpetit J.

PLoS One. 2011;6(9):e24996. doi: 10.1371/journal.pone.0024996. Epub 2011 Sep 19.

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