Browsing by Author "Reich, David"

Now showing items 21-40 of 53

    • Evidence of Widespread Selection on Standing Variation in Europe at Height-Associated SNPs 

      Turchin, Michael C.; Chiang, Charleston W. K.; Palmer, Cameron Douglas; Sankararaman, Sriram; Reich, David Emil; Hirschhorn, Joel Naom; GIANT Consortium (Nature Publishing Group, 2012)
      Strong signatures of positive selection at newly arising genetic variants are well-documented in humans, but this form of selection may not be widespread in recent human evolution. Because many human traits are highly ...

    • Functional Enhancers at the Gene-Poor 8q24 Cancer-Linked Locus 

      Landan, Gilad; Jaschek, Rami; Herman, Paula; Yan, Chunli; Khalid, Omar; Oh, William; Manak, J. Robert; Henderson, Brian E.; Frenkel, Baruch; Haiman, Christopher A.; Tanay, Amos; Coetzee, Gerhard A.; Jia, Li; Pomerantz, Mark M; Reich, David Emil; Kantoff, Philip Wayne; Berman, Benjamin P; Freedman, Matthew Lawrence (Public Library of Science, 2009)
      Multiple discrete regions at 8q24 were recently shown to contain alleles that predispose to many cancers including prostate, breast, and colon. These regions are far from any annotated gene and their biological activities ...

    • Genetic Differences between the Determinants of Lipid Profile Phenotypes in African and European Americans: The Jackson Heart Study 

      Deo, Rahul Chandrakant; Reich, David Emil; Tandon, Arti; Akylbekova, Ermeg; Patterson, Nick; Waliszewska, Alicja; Kathiresan, Sekar; Sarpong, Daniel; Taylor, Herman A., Jr.; Wilson, James G. (Public Library of Science, 2009)
      Genome-wide association analysis in populations of European descent has recently found more than a hundred genetic variants affecting risk for common disease. An open question, however, is how relevant the variants discovered ...

    • Genetic evidence for two founding populations of the Americas 

      Skoglund, Pontus; Mallick, Swapan; Bortolini, Maria Cátira; Chennagiri, Niru; Hünemeier, Tábita; Petzl-Erler, Maria Luiza; Salzano, Francisco Mauro; Patterson, Nick; Reich, David (2015)
      Genetic studies have been consistent with a single common origin of Native American groups from Central and South America1-4. However, some morphological studies have suggested a more complex picture, whereby the northeast ...

    • A Genetic History of the Pre-Contact Caribbean 

      Fernandes, Daniel M.; Sirak, Kendra; Ringbauer, Harald; Sedig, Jakob; Rohland-Pinello, Nadin; Cheronet, Olivia; Mah, Matthew; Mallick, Swapan; Olalde, Inigo; Culleton, Brendan J.; Adamski, Nicole; Bernardos, Rebecca; Bravo, Guillermo; Broomandkhoshbacht, Nasreen; Callan, Kimberly; Candilio, Francesca; Demetz, Lea; Carlson, Kellie; Eccles, Laurie; Freilich, Suzanne; George, Richard J.; Lawson, Ann Marie; Mandl, Kirsten; Marzaioli, Fabio; McCool, Weston C.; Oppenheimer, Jonas; Özdogan, Kadir T.; Schattke, Constanze; Schmidt, Ryan; Stewardson, Kristin; Terrasi, Filippo; Zalzala, Fatma; Antúnez, Carlos Arredondo; Canosa, Ercilio Vento; Colten, Roger; Cucina, Andrea; Genchi, Francesco; Kraan, Claudia; La Pastina, Francesco; Lucci, Michaela; Maggiolo, Marcio Veloz; Marcheco-Teruel, Beatriz; Maria, Clenis Tavarez; Martínez, Christian; París, Ingeborg; Pateman, Michael; Simms, Tanya; Sivoli, Carlos Garcia; Vilar, Miguel; Kennett, Douglas J.; Keegan, William; Coppa, Alfredo; Lipson, Mark; Pinhasi, Ron; Reich, David (Springer Nature, 2020-12-23)
      Humans settled the Caribbean ~6,000 years ago, with ceramic use and intensified agriculture marking a shift from the Archaic to the Ceramic Age ~2,500 years ago. We report genome-wide data from 174 individuals from The ...

    • The genetic prehistory of southern Africa 

      Pickrell, Joseph; Patterson, Nick; Barbieri, Chiara; Berthold, Falko; Gerlach, Linda; Güldemann, Tom; Kure, Blesswell; Mpoloka, Sununguko Wata; Nakagawa, Hirosi; Naumann, Christfried; Lipson, Mark; Loh, Po-Ru; Lachance, Joseph; Mountain, Joanna; Bustamante, Carlos D.; Berger, Bonnie; Tishkoff, Sarah A.; Henn, Brenna M.; Stoneking, Mark; Reich, David; Pakendorf, Brigitte (Nature Pub. Group, 2012)
      Southern and eastern African populations that speak non-Bantu languages with click consonants are known to harbour some of the most ancient genetic lineages in humans, but their relationships are poorly understood. Here, ...

    • Genetic Structure of Chimpanzee Populations 

      Becquet, Celine; Patterson, Nick; Stone, Anne C; Przeworski, Molly; Reich, David Emil (Public Library of Science, 2007)
      Little is known about the history and population structure of our closest living relatives, the chimpanzees, in part because of an extremely poor fossil record. To address this, we report the largest genetic study of the ...

    • Genetic Study of Population Mixture and Its Role in Human History 

      Moorjani, Priya (2013-09-25)
      Mixture between populations is an evolutionary process that shapes genetic variation. Intermixing between groups of distinct ancestries creates mosaics of chromosomal segments inherited from multiple ancestral populations. ...

    • Genome-wide patterns of selection in 230 ancient Eurasians 

      Mathieson, Iain; Lazaridis, Iosif; Rohland, Nadin; Mallick, Swapan; Patterson, Nick; Roodenberg, Songül Alpaslan; Harney, Eadaoin; Stewardson, Kristin; Fernandes, Daniel; Novak, Mario; Sirak, Kendra; Gamba, Cristina; Jones, Eppie R.; Llamas, Bastien; Dryomov, Stanislav; Pickrel, Joseph; Arsuaga, Juan Luís; de Castro, José María Bermúdez; Carbonell, Eudald; Gerritsen, Fokke; Khokhlov, Aleksandr; Kuznetsov, Pavel; Lozano, Marina; Meller, Harald; Mochalov, Oleg; Moiseyev, Vayacheslav; Rojo Guerra, Manuel A.; Roodenberg, Jacob; Vergès, Josep Maria; Krause, Johannes; Cooper, Alan; Alt, Kurt W.; Brown, Dorcas; Anthony, David; Lalueza-Fox, Carles; Haak, Wolfgang; Pinhasi, Ron; Reich, David (2016)
      Ancient DNA makes it possible to directly witness natural selection by analyzing samples from populations before, during and after adaptation events. Here we report the first scan for selection using ancient DNA, capitalizing ...

    • Genomic DNA Sequences from Mastodon and Woolly Mammoth Reveal Deep Speciation of Forest and Savanna Elephants 

      Green, Richard E.; Georgiadis, Nicholas J.; Roca, Alfred L.; Hofreiter, Michael; Penny, David; Rohland, Nadin; Reich, David Emil; Mallick, Swapan; Meyer, Matthias (Public Library of Science, 2010)
      To elucidate the history of living and extinct elephantids, we generated 39,763 bp of aligned nuclear DNA sequence across 375 loci for African savanna elephant, African forest elephant, Asian elephant, the extinct American ...

    • Genomic insights into the formation of human populations in East Asia 

      Reich, David (Springer Science and Business Media LLC, 2021-02-22)
      The deep population history of East Asia remains poorly understood due to a lack of ancient DNA data and sparse sampling of present-day people. We report genome-wide data from 166 East Asians dating to 6000 BCE – 1000 CE ...

    • Gibbon genome and the fast karyotype evolution of small apes 

      Carbone, Lucia; Harris, R. Alan; Gnerre, Sante; Veeramah, Krishna R.; Lorente-Galdos, Belen; Huddleston, John; Meyer, Thomas J.; Herrero, Javier; Roos, Christian; Aken, Bronwen; Anaclerio, Fabio; Archidiacono, Nicoletta; Baker, Carl; Barrell, Daniel; Batzer, Mark A.; Beal, Kathryn; Blancher, Antoine; Bohrson, Craig L.; Brameier, Markus; Campbell, Michael S.; Capozzi, Oronzo; Casola, Claudio; Chiatante, Giorgia; Cree, Andrew; Damert, Annette; de Jong, Pieter J.; Dumas, Laura; Fernandez-Callejo, Marcos; Flicek, Paul; Fuchs, Nina V.; Gut, Marta; Gut, Ivo; Hahn, Matthew W.; Hernandez-Rodriguez, Jessica; Hillier, LaDeana W.; Hubley, Robert; Ianc, Bianca; Izsvák, Zsuzsanna; Jablonski, Nina G.; Johnstone, Laurel M.; Karimpour-Fard, Anis; Konkel, Miriam K.; Kostka, Dennis; Lazar, Nathan H.; Lee, Sandra L.; Lewis, Lora R.; Liu, Yue; Locke, Devin P.; Mallick, Swapan; Mendez, Fernando L.; Muffato, Matthieu; Nazareth, Lynne V.; Nevonen, Kimberly A.; O,Bleness, Majesta; Ochis, Cornelia; Odom, Duncan T.; Pollard, Katherine S.; Quilez, Javier; Reich, David; Rocchi, Mariano; Schumann, Gerald G.; Searle, Stephen; Sikela, James M.; Skollar, Gabriella; Smit, Arian; Sonmez, Kemal; Hallers, Boudewijn ten; Terhune, Elizabeth; Thomas, Gregg W.C.; Ullmer, Brygg; Ventura, Mario; Walker, Jerilyn A.; Wall, Jeffrey D.; Walter, Lutz; Ward, Michelle C.; Wheelan, Sarah J.; Whelan, Christopher W.; White, Simon; Wilhelm, Larry J.; Woerner, August E.; Yandell, Mark; Zhu, Baoli; Hammer, Michael F.; Marques-Bonet, Tomas; Eichler, Evan E.; Fulton, Lucinda; Fronick, Catrina; Muzny, Donna M.; Warren, Wesley C.; Worley, Kim C.; Rogers, Jeffrey; Wilson, Richard K.; Gibbs, Richard A. (2014)
      Gibbons are small arboreal apes that display an accelerated rate of evolutionary chromosomal rearrangement and occupy a key node in the primate phylogeny between Old World monkeys and great apes. Here we present the assembly ...

    • A High-Density Admixture Scan in 1,670 African Americans with Hypertension 

      Patterson, Nick; McDonald, Gavin J; Haiman, Christopher A; Ardlie, Kristin; Henderson, Brian E; Henderson, Sean O; Leal, Suzanne M; Deo, Rahul Chandrakant; Tandon, Arti; Reich, David Emil (Public Library of Science, 2007)
      Hypertension (HTN) is a devastating disease with a higher incidence in African Americans than European Americans, inspiring searches for genetic variants that contribute to this difference. We report the results of a ...

    • A high-resolution picture of kinship practices in an Early Neolithic tomb 

      Fowler, Chris; Olalde, Iñigo; Cummings, Vicki; Armit, Ian; Büster, Lindsey; Cuthbert, Sarah; Rohland, Nadin; Cheronet, Olivia; Pinhasi, Ron; Reich, David (Springer Science and Business Media LLC, 2021-12-22)

    • Human Population Differentiation is Strongly Correlated With Local Recombination Rate 

      Keinan, Alon; Reich, David Emil (Public Library of Science, 2010)
      Allele frequency differences across populations can provide valuable information both for studying population structure and for identifying loci that have been targets of natural selection. Here, we examine the relationship ...

    • The Impact of Divergence Time on the Nature of Population Structure: An Example from Iceland 

      Helgason, Agnar; Palsson, Snaebjorn; Stefansson, Hreinn; St. Clair, David; Andreassen, Ole A.; Kong, Augustine; Stefansson, Kari; Price, Alkes; Reich, David Emil (Public Library of Science, 2009)
      The Icelandic population has been sampled in many disease association studies, providing a strong motivation to understand the structure of this population and its ramifications for disease gene mapping. Previous work using ...

    • Inferring Admixture Histories of Human Populations Using Linkage Disequilibrium 

      Loh, Po-Ru; Lipson, Mark; Patterson, Nick; Moorjani, Priya; Pickrell, Joseph; Reich, David Emil; Berger, Bonnie (Genetics Society of America, 2013)
      Long-range migrations and the resulting admixtures between populations have been important forces shaping human genetic diversity. Most existing methods for detecting and reconstructing historical admixture events are based ...

    • The landscape of Neandertal ancestry in present-day humans 

      Sankararaman, Sriram; Mallick, Swapan; Dannemann, Michael; Prüfer, Kay; Kelso, Janet; Pääbo, Svante; Patterson, Nick; Reich, David (2014)
      Analyses of Neandertal genomes have revealed that Neandertals have contributed genetic variants to modern humans1–2. The antiquity of Neandertal gene flow into modern humans means that regions that derive from Neandertals ...

    • Large-Scale Migration into Britain During the Middle to Late Bronze Age 

      Patterson, Nicholas; Isakov, Michael; Booth, Thomas; Büster, Lindsey; Fischer, Claire-Elise; Olalde, Inigo; Ringbauer, Harald; Akbari, Ali; Cheronet, Olivia; Bleasdale, Madeleine; Adamski, Nicole; Altena, Eveline; Bernardos, Rebecca; Brace, Selina; Broomandkhoshbacht, Nasreen; Callan, Kimberly; Candilio, Francesca; Culleton, Brendan; Curtis, Elizabeth; Demetz, Lea; Carlson, Kellie; Edwards, C.; Fernandes, Daniel M.; Foody, M. George B.; Freilich, Suzanne; Goodchild, Helen; Kearns, Aisling; Lawson, Ann Marie; Lazaridis, Iosif; Mah, Matthew; Mallick, Swapan; Mandl, Kirsten; Micco, Adam; Michel, Megan; Morante, Guillermo Bravo; Oppenheimer, Jonas; Özdoğan, Kadir Toykan; Qiu, Lijun; Schattke, Constanze; Stewardson, Kristin; Workman, James; Zalzala, Fatma; Zhang, Zhao; Agustí, Bibiana; Allen, Tim; Almássy, Katalin; Amkreutz, Luc; Ash, Abigail; Baillif-Ducros, Christèle; Barclay, Alistair; Bartosiewicz, László; Baxter, Katherine; Bernert, Zsolt; Blažek, Jan; Bodružić, Mario; Boissinot, Philippe; Bonsall, Clive; Bradley, Pippa; Brittain, Marcus; Brookes, Alison; Brown, Fraser; Brown, Lisa; Budd, Chelsea; Burmaz, Josip; Canet, Sylvain; Carnicero-Cáceres, Silvia; Čaušević-Bully, Morana; Chamberlain, Andrew; Chauvin, Sébastien; Clough, Sharon; Čondić, Natalija; Coppa, Alfredo; Craig, Oliver; Črešnar, Matija; Cummings, Vicki; Czifra, Szabolcs; Danielisová, Alžběta; Daniels, Robin; Davies, Alex; de Jersey, Philip; Deacon, Jody; Deminger, Csilla; Ditchfield, Peter W.; Dizdar, Marko; Dobeš, Miroslav; Dobisíková, Miluše; Domboróczki, László; Drinkall, Gail; Đukić, Ana; Ernée, Michal; Evans, Christopher; Evans, Jane; Fernández-Götz, Manuel; Filipović, Slavica; Fitzpatrick, Andrew; Fokkens, Harry; Fowler, Chris; Fox, Allison; Gallina, Zsolt; Gamble, Michelle; González Morales, Manuel R.; González-Rabanal, Borja; Green, Adrian; Gyenesei, Katalin; Habermehl, Diederick; Hajdu, Tamás; Hamilton, Derek; Harris, James; Hayden, Chris; Hendriks, Joep; Hernu, Bénédicte; Hey, Gill; Horňák, Milan; Ilon, Gábor; Istvánovits, Eszter; Jones, Andy M.; Blečić Kavur, Martina; Kazek, Kevin; Kenyon, Robert A.; Khreisheh, Amal; Kiss, Viktória; Kleijne, Jos; Knight, Mark; Kootker, Lisette M.; Kovács, Péter F.; Kozubová, Anita; Kulcsár, Gabriella; Kulcsár, Valéria; Le Pennec, Christophe; Legge, Michael; Leivers, Matt; Loe, Louise; López-Costas, Olalla; Lord, Tom; Los, Dženi; Lyall, James; Marín-Arroyo, Ana B.; Mason, Philip; Matošević, Damir; Maxted, Andy; McIntyre, Lauren; McKinley, Jacqueline; McSweeney, Kathleen; Meijlink, Bernard; Mende, Balázs G.; Menđušić, Marko; Metlička, Milan; Meyer, Sophie; Mihovilić, Kristina; Milasinovic, Lidija; Minnitt, Steve; Moore, Joanna; Morley, Geoff; Mullan, Graham; Musilová, Margaréta; Neil, Benjamin; Nicholls, Rebecca; Novak, Mario; Pala, Maria; Papworth, Martin; Paresys, Cécile; Patten, Ricky; Perkić, Domagoj; Pesti, Krisztina; Petit, Alba; Petriščáková, Katarína; Pichon, Coline; Pickard, Catriona; Pilling, Zoltán; Price, T. Douglas; Radović, Siniša; Redfern, Rebecca; Resutík, Branislav; Rhodes, Daniel T.; Richards, Martin B.; Roberts, Amy; Roefstra, Jean; Sankot, Pavel; Šefčáková, Alena; Sheridan, Alison; Skae, Sabine; Šmolíková, Miroslava; Somogyi, Krisztina; Somogyvári, Ágnes; Stephens, Mark; Szabó, Géza; Szécsényi-Nagy, Anna; Szeniczey, Tamás; Tabor, Jonathan; Tankó, Károly; Tavarez Maria, Clenis; Terry, Rachel; Teržan, Biba; Teschler-Nicola, Maria; Torres-Martínez, Jesús F.; Trapp, Julien; Turle, Ross; Ujvári, Ferenc; van der Heiden, Menno; Veleminsky, Petr; Veselka, Barbara; Vytlačil, Zdeněk; Waddington, Clive; Ware, Paula; Wilkinson, Paul; Wilson, Linda; Wiseman, Rob; Young, Eilidh; Zaninović, Joško; Žitňan, Andrej; Lalueza-Fox, Carles; de Knijff, Peter; Barnes, Ian; Halkon, Peter; Thomas, Mark G.; Kennett, Douglas J.; Cunliffe, Barry; Lillie, Malcolm; Rohland-Pinello, Nadin; Pinhasi, Ron; Armit, Ian; Reich, David (SpringerNature, 2021-12-22)
      Present-day people from England and Wales harbour more ancestry derived from Early European Farmers (EEF) than people of the Early Bronze Age1. To understand this, we generated genome-wide data from 793 individuals, ...

    • Leveraging population admixture to explain missing heritability of complex traits 

      Zaitlen, Noah; Pasaniuc, Bogdan; Sankararaman, Sriram; Bhatia, Gaurav; Zhang, Jianqi; Gusev, Alexander; Young, Taylor; Tandon, Arti; Pollack, Samuela; Vilhjálmsson, Bjarni J.; Assimes, Themistocles L.; Berndt, Sonja I.; Blot, William J.; Chanock, Stephen; Franceschini, Nora; Goodman, Phyllis G.; He, Jing; Hennis, Anselm JM; Hsing, Ann; Ingles, Sue A.; Isaacs, William; Kittles, Rick A.; Klein, Eric A.; Lange, Leslie A.; Nemesure, Barbara; Patterson, Nick; Reich, David; Rybicki, Benjamin A.; Stanford, Janet L.; Stevens, Victoria L; Strom, Sara S.; Whitsel, Eric A; Witte, John S.; Xu, Jianfeng; Haiman, Christopher; Wilson, James G.; Kooperberg, Charles; Stram, Daniel; Reiner, Alex P.; Tang, Hua; Price, Alkes L. (2014)
      Despite recent progress on estimating the heritability explained by genotyped SNPs (hg2), a large gap between hg2 and estimates of total narrow-sense heritability (h2) remains. Explanations for this gap include rare variants, ...