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1.
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11 p, 1.6 MB |
Human Genome Variation and the Concept of Genotype Networks
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Dall'Olio, Giovanni Marco (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Bertranpetit, Jaume (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Wagner, Andreas (The Santa Fe Institute) ;
Laayouni, Hafid (Universitat Autònoma de Barcelona)
Genotype networks are a concept used in systems biology to study sets of genotypes having the same phenotype, and the ability of these to bring forth novel phenotypes. In the past they have been applied to determine the genetic heterogeneity, and stability to mutations, of systems such as metabolic networks and RNA folds. [...]
2014 -  10.1371/journal.pone.0099424
PloS one, Vol. 9, Issue 8 (June 2014) , art. e107347
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2.
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11 p, 826.4 KB |
The genetics of East African populations : a Nilo-Saharan component in the African genetic landscape
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Dobon, Begoña (Universitat Pompeu Fabra. Departament de Ciències Experimentals i de la Salut) ;
Hassan, Hisham Y. (Bahrain Defence Force Hospital) ;
Laayouni, Hafid (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia) ;
Luisi, Pierre (Universitat Pompeu Fabra. Departament de Ciències Experimentals i de la Salut) ;
Ricaño-Ponce, Isis (University of Groningen. Department of Genetics) ;
Zhernakova, Alexandra (University of Groningen. Department of Genetics) ;
Wijmenga, Cisca (University of Groningen. Department of Genetics) ;
Tahir, Hanan (University of Medical Sciences and Technology) ;
Comas, D. (Universitat Pompeu Fabra. Departament de Ciències Experimentals i de la Salut) ;
Netea, Mihai G. (Radboud University Nijmegen Medical Centre) ;
Bertranpetit, Jaume (Universitat Pompeu Fabra. Departament de Ciències Experimentals i de la Salut)
East Africa is a strategic region to study human genetic diversity due to the presence of ethnically, linguistically, and geographically diverse populations. Here, we provide new insight into the genetic history of populations living in the Sudanese region of East Africa by analysing nine ethnic groups belonging to three African linguistic families: Niger-Kordofanian, Nilo-Saharan and Afro-Asiatic. [...]
2015 - 10.1038/srep09996
Scientific reports, Vol. 5 (May 2015) , art. 9996
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3.
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8 p, 990.0 KB |
The genome sequencing of an albino Western lowland gorilla reveals inbreeding in the wild
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Prado-Martinez, Javier (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Hernando Herraez, Irene (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Lorente-Galdos, Belen (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Dabad, Marc (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Ramírez, Óscar (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Baeza Delgado, Carlos (Universitat de València. Departament de Bioquímica i Biologia Molecular) ;
Morcillo-Suarez, Carlos (Universitat Pompeu Fabra. Instituto Nacional de Bioinformatica) ;
Alkan, Can (Bilkent University. Department of Computer Engineering) ;
Hormozdiari, Fereydoun (University of Washington. Department of Genome Sciences) ;
Raineri, Emanuele (Centre Nacional d'Anàlisi Genòmica) ;
Estellé, Jordi (Centre Nacional d'Anàlisi Genòmica) ;
Fernández, Marcos (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Valles, Mònica (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Ritscher, Lars (University of Leipzig. Institute of Biochemistry) ;
Schöneberg, Torsten (University of Leipzig. Institute of Biochemistry) ;
De la Calle-Mustienes, Elisa (Centro Andaluz de Biología del Desarrollo) ;
Casillas Viladerrams, Sònia (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Rubio Acero, Raquel (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Melé, M. (Universitat Pompeu Fabra. Centre de Regulació Genòmica (CRG-UPF)) ;
Engelken, Johannes (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Cáceres Aguilar, Mario (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Gomez-Skarmeta, José Luis (Centro Andaluz de Biología del Desarrollo) ;
Gut, Marta (Centre Nacional d'Anàlisi Genòmica) ;
Bertranpetit, Jaume (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Gut, Ivo (Centre Nacional d'Anàlisi Genòmica) ;
Abello, Teresa (Zoo de Barcelona) ;
Eichler, Evan E. (Howard Hugues Medical Institute) ;
Mingarro, Ismael (Universitat de València. Departament de Bioquímica i Biologia Molecular) ;
Lalueza-Fox, Carles (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Navarro, Arcadi, 1969- (Institució Catalana de Recerca i Estudis Avançats) ;
Marques-Bonet, Tomas 1975- (Institució Catalana de Recerca i Estudis Avançats)
Background: the only known albino gorilla, named Snowflake, was a male wild born individual from Equatorial Guinea who lived at the Barcelona Zoo for almost 40 years. He was diagnosed with non-syndromic oculocutaneous albinism, i. [...]
2013 - 10.1186/1471-2164-14-363
BMC genomics, Vol. 14 (2013) , art. 363
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4.
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5 p, 788.2 KB |
Great ape genetic diversity and population history
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Prado-Martinez, Javier (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Sudmant, Peter H. (Department of Genome Sciences. University of Washington) ;
Kidd, Jeffrey (Department of Genetics. Stanford University) ;
Li, Heng (Department of Genetics. Harvard Medical School, Boston) ;
Kelley, Joanna (Department of Genetics. Stanford University) ;
Lorente-Galdos, Belen (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Veeramah, Krishna (Arizona Research Laboratories. Division of Biotechnology. University of Arizona) ;
Woerner, August (Arizona Research Laboratories. Division of Biotechnology. University of Arizona) ;
O'Connor, Timothy (Department of Genome Sciences. University of Washington) ;
Santpere, Gabriel (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Cagan, Alexander (Max Planck Institute for Evolutionary Anthropology. Department of Evolutionary Genetics) ;
Theunert, Christoph (Max Planck Institute for Evolutionary Anthropology. Department of Evolutionary Genetics) ;
Casals, Ferran (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Laayouni, Hafid (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Munch Terkelsen, Kasper (Aarhus University. Bioinformatics Research Centre) ;
Hobolth, Asger (Aarhus University. Bioinformatics Research Centre) ;
Halager, Anders E. (Aarhus University. Bioinformatics Research Centre) ;
Malig, Maika (Department of Genome Sciences. University of Washington) ;
Hernandez-Rodriguez, Jessica (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Hernando-Herraez, Irene (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Prüfer, Kay (Max Planck Institute for Evolutionary Anthropology. Department of Evolutionary Genetics) ;
Pybus, Marc (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Johnstone, Laurel (Arizona Research Laboratories. Division of Biotechnology. University of Arizona) ;
Lachmann, Michael (Max Planck Institute for Evolutionary Anthropology. Department of Evolutionary Genetics) ;
Alkan, Can (Bilkent University. Faculty of Engineering) ;
Twigg, Dorina (Department of Human Genetics. University of Michigan) ;
Petit Marty, Natalia (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Baker, Carl (Department of Genome Sciences. University of Washington) ;
Hormozdiari, Fereydoun (University of Washington. Department of Genome Sciences) ;
Fernández, Marcos (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Dabad, Marc (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Wilson, Michael L. (Department of Anthropology. University of Minnesota) ;
Stevison, Laurie (Institute for Human Genetics. University of California San Francisco) ;
Camprubí Sánchez, Cristina (Universitat Autònoma de Barcelona. Departament de Biologia Cel·lular, de Fisiologia i d'Immunologia) ;
Carvalho, Tiago (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Ruiz-Herrera Moreno, Aurora (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Vives, Laura T. (Department of Genome Sciences. University of Washington) ;
Mele, Marta (Centre de Regulació Genòmica) ;
Abelló, María Teresa. (Zoo de Barcelona) ;
Kondova, Ivanela (Biomedical Primate Research Centre) ;
Bontrop, Ronald (Biomedical Primate Research Centre) ;
Pusey, Anne E (Duke University. Department of Evolutionary Anthropology) ;
Lankester, Felix (Washington State University. Paul G. Allen School for Global Animal Health) ;
Kiyang, John A. (Limbe Wildlife Centre) ;
Bergl, Richard A. (North Carolina Zoological Park) ;
Lonsdorf, E. (Franklin and Marshall College. Department of Psychology) ;
Myers, S. (Oxford University. Department of Statistics) ;
Ventura, M. (University of Bari. Department of Genetics and Microbiology) ;
Gagneux, Pascal (University of California San Diego. Department of Cellular and Molecular Medicine) ;
Comas, D. (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Siegismund, H. (University of Copenhagen Department of Biology, Bioinformatics) ;
Blanc, Julie (Centro Nacional de Análisis Genómico (CNAG). PCB) ;
Agueda Calpena, Lidia (Centro Nacional de Análisis Genómico (CNAG). PCB) ;
Gut, Marta (Centro Nacional de Análisis Genómico (CNAG). PCB) ;
Fulton, L. A (Washington University School of Medicine. Genome Sequencing Center) ;
Tishkoff, S. A. (University of Pennsylvania. Department of Biology and Genetics) ;
Mullikin, J. C. (National Institutes of Health Intramural Sequencing Center (Bethesda, Estats Units d'Amèrica)) ;
Wilson, R. K. (Washington University School of Medicine. Genome Sequencing Center) ;
Gut, I. G. (Centro Nacional de Análisis Genómico (CNAG). PCB) ;
Gonder, M. K. (University at Albany) ;
Ryder, O. A. (Genetics Division. San Diego Zoo's Institute for Conservation Research) ;
Hahn, B. H. (University of Pennsylvania. Departments of Medicine and Microbiology) ;
Navarro, Arcadi, 1969- (Institució Catalana de Recerca i Estudis Avançats) ;
Akey, J. M. (University of Washington. Department of Genome Sciences) ;
Bertranpetit, Jaume (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Reich, D. (Harvard Medical School. Department of Genetics) ;
Mailund, Thomas (Aarhus University. Bioinformatics Research Centre) ;
Schierup, Mikkel Heide (Aarhus University. Department of Bioscience) ;
Hvilsom, Christina (Copenhagen Zoo) ;
Andrés, A. M. (Max Planck Institute for Evolutionary Anthropology. Department of Evolutionary Genetics) ;
Wall, J. D. (University of California San Francisco. Institute for Human Genetics) ;
Bustamante, Carlos D (Stanford University. Department of Genetics) ;
Hammer, M. F. (University of Arizona. Arizona Research Laboratories. Division of Biotechnology) ;
Eichler, Evan E (Howard Hughes Medical Institute) ;
Marques-Bonet, Tomas 1975- (Institució Catalana de Recerca i Estudis Avançats)
Most great ape genetic variation remains uncharacterized; however, its study is critical for understanding population history, recombination, selection and susceptibility to disease. Here we sequence to high coverage a total of 79 wild- and captive-born individuals representing all six great ape species and seven subspecies and report 88. [...]
2013 - 10.1038/nature12228
Nature, Vol. 499, issue 7459 (July 2013) , p. 471-475
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5.
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13 p, 1.7 MB |
Genomes reveal marked differences in the adaptive evolution between orangutan species
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Mattle-Greminger, Maja P. (University of Zurich. Department of Anthropology) ;
Bilgin Sonay, Tugce (University of Zurich. Department of Anthropology) ;
Nater, Alexander (University of Zurich. Department of Anthropology) ;
Pybus, Marc (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Desai, Tariq (University of Cambridge. Department of Genetics) ;
Valles, Guillem de (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Casals, Ferran (Universitat Pompeu Fabra. Servei de Genòmica) ;
Scally, Aylwyn (University of Cambridge. Department of Genetics) ;
Bertranpetit, Jaume (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Marques-Bonet, Tomas, 1975- (Institut Català de Paleontologia Miquel Crusafont) ;
van Schaik, Carel P. (University of Zurich. Department of Anthropology) ;
Anisimova, Maria (Zurich University of Applied Sciences ZHAW) ;
Krützen, Michael (University of Zurich. Department of Anthropology)
Background: Integrating demography and adaptive evolution is pivotal to understanding the evolutionary history and conservation of great apes. However, little is known about the adaptive evolution of our closest relatives, in particular if and to what extent adaptions to environmental differences have occurred. [...]
2018 - 10.1186/s13059-018-1562-6
Genome biology, Vol. 19 (Novembre 2018) , art. 193
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6.
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8 p, 532.3 KB |
PopHuman : the human population genomics browser
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Casillas Viladerrams, Sònia (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Mulet, Roger (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Villegas-Mirón, Pablo (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Hervás Fernández, Sergi (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Sanz, Esteve (Universitat Autònoma de Barcelona. Servei de Genòmica) ;
Velasco, Daniel (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Bertranpetit, Jaume (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Laayouni, Hafid (Universitat Pompeu Fabra. Escola Superior de Comerç Internacional (ESCI-UPF)) ;
Barbadilla Prados, Antonio (Universitat Autònoma de Barcelona. Servei de Genòmica) ;
Universitat Autònoma de Barcelona.
Departament de Genètica i de Microbiologia
2017 - 10.1093/nar/gkx943
Nucleic acids research, Vol. 46 (October 2017) , p. D1003-D1010
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7.
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16 p, 839.7 KB |
Natural Selection in the Great Apes
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Cagan, Alexander (Max Planck Institute for Evolutionary Anthropology. Department of Evolutionary Genetics) ;
Theunert, Christoph (University of California. Department of Integrative Biology) ;
Laayouni, Hafid (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia) ;
Santpere, Gabriel (Yale University School of Medicine. Department of Neuroscience) ;
Pybus, Marc (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Casals, Ferran (Universitat Pompeu Fabra. Departament de Ciències Experimentals i de la Salut) ;
Prüfer, Kay (Max Planck Institute for Evolutionary Anthropology. Department of Evolutionary Genetics) ;
Navarro, Arcadi, 1969- (Institució Catalana de Recerca i Estudis Avançats) ;
Marques-Bonet, Tomas 1975- (Institució Catalana de Recerca i Estudis Avançats) ;
Bertranpetit, Jaume (University of Cambridge. Department of Archaeology and Anthropology, Leverhulme Centre for Human Evolutionary Studies) ;
Andrés, Aida M. (Max Planck Institute for Evolutionary Anthropology. Department of Evolutionary Genetics)
Natural selection is crucial for the adaptation of populations to their environments. Here, we present the first global study of natural selection in the Hominidae (humans and great apes) based on genome-wide information from population samples representing all extant species (including most subspecies). [...]
2016 - 10.1093/molbev/msw215
Molecular biology and evolution, Vol. 33, Núm. 12 (desembre 2016) , p. 3268-3283
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14 p, 654.2 KB |
Recent Positive Selection Has Acted on Genes Encoding Proteins with More Interactions within the Whole Human Interactome
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Luisi, Pierre (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Alvarez-Ponce, David (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Pybus, Marc (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Fares, Mario A. (University of Dublin. Smurfit Institute of Genetics) ;
Bertranpetit, Jaume (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Laayouni, Hafid (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia)
Genes vary in their likelihood to undergo adaptive evolution. The genomic factors that determine adaptability, however, remain poorly understood. Genes function in the context of molecular networks, with some occupying more important positions than others and thus being likely to be under stronger selective pressures. [...]
2015 - 10.1093/gbe/evv055
Genome biology and evolution, Vol. 7, issue 4 (april 2015) , p. 1141-1154
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