J
Jeffrey P. Spence
Researcher at University of California, Berkeley
Publications - 38
Citations - 2094
Jeffrey P. Spence is an academic researcher from University of California, Berkeley. The author has contributed to research in topics: Biology & Population. The author has an hindex of 12, co-authored 22 publications receiving 1371 citations. Previous affiliations of Jeffrey P. Spence include Stanford University.
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Journal ArticleDOI
The Simons Genome Diversity Project: 300 genomes from 142 diverse populations
Swapan Mallick,Swapan Mallick,Swapan Mallick,Heng Li,Mark Lipson,Iain Mathieson,Melissa Gymrek,Fernando Racimo,Mengyao Zhao,Mengyao Zhao,Mengyao Zhao,Niru Chennagiri,Niru Chennagiri,Niru Chennagiri,Susanne Nordenfelt,Susanne Nordenfelt,Susanne Nordenfelt,Arti Tandon,Arti Tandon,Pontus Skoglund,Pontus Skoglund,Iosif Lazaridis,Iosif Lazaridis,Sriram Sankararaman,Sriram Sankararaman,Sriram Sankararaman,Qiaomei Fu,Qiaomei Fu,Qiaomei Fu,Nadin Rohland,Nadin Rohland,Gabriel Renaud,Yaniv Erlich,Thomas Willems,Carla Gallo,Jeffrey P. Spence,Yun S. Song,Yun S. Song,Giovanni Poletti,Francois Balloux,George van Driem,Peter de Knijff,Irene Gallego Romero,Aashish R. Jha,Doron M. Behar,Claudio M. Bravi,Cristian Capelli,Tor Hervig,Andrés Moreno-Estrada,Olga L. Posukh,Elena Balanovska,Oleg Balanovsky,Sena Karachanak-Yankova,Hovhannes Sahakyan,Hovhannes Sahakyan,Draga Toncheva,Levon Yepiskoposyan,Chris Tyler-Smith,Yali Xue,M. Syafiq Abdullah,Andres Ruiz-Linares,Cynthia M. Beall,Anna Di Rienzo,Choongwon Jeong,Elena B. Starikovskaya,Ene Metspalu,Ene Metspalu,Jüri Parik,Richard Villems,Richard Villems,Richard Villems,Brenna M. Henn,Ugur Hodoglugil,Robert W. Mahley,Antti Sajantila,George Stamatoyannopoulos,Joseph Wee,Rita Khusainova,Elza Khusnutdinova,Sergey Litvinov,Sergey Litvinov,George Ayodo,David Comas,Michael F. Hammer,Toomas Kivisild,Toomas Kivisild,William Klitz,Cheryl A. Winkler,Damian Labuda,Michael J. Bamshad,Lynn B. Jorde,Sarah A. Tishkoff,W. Scott Watkins,Mait Metspalu,Stanislav Dryomov,Rem I. Sukernik,Lalji Singh,Lalji Singh,Kumarasamy Thangaraj,Svante Pääbo,Janet Kelso,Nick Patterson,David Reich,David Reich,David Reich +104 more
TL;DR: It is demonstrated that indigenous Australians, New Guineans and Andamanese do not derive substantial ancestry from an early dispersal of modern humans; instead, their modern human ancestry is consistent with coming from the same source as that of other non-Africans.
Journal ArticleDOI
Early human dispersals within the Americas.
J. Víctor Moreno-Mayar,Lasse Vinner,Peter de Barros Damgaard,Constanza de la Fuente,Jeffrey Chan,Jeffrey P. Spence,Morten E. Allentoft,Tharsika Vimala,Fernando Racimo,Thomaz Pinotti,Simon Rasmussen,Ashot Margaryan,Ashot Margaryan,Miren Iraeta Orbegozo,Dorothea Mylopotamitaki,Matthew J. Wooller,Clement P. Bataille,Lorena Becerra-Valdivia,David Chivall,Daniel Comeskey,Thibaut Devièse,Donald K. Grayson,Len George,Harold Harry,Verner Alexandersen,Charlotte Primeau,Jon M. Erlandson,Claudia Rodrigues-Carvalho,Silvia Reis,Murilo Q.R. Bastos,Jerome S. Cybulski,Jerome S. Cybulski,Carlos Vullo,Flavia Morello,Miguel Vilar,Spencer Wells,Kristian Gregersen,Kasper Lykke Hansen,Niels Lynnerup,Marta Mirazón Lahr,Kurt H. Kjær,André Strauss,André Strauss,Marta P. Alfonso-Durruty,Antonio Salas,Hannes Schroeder,Thomas Higham,Ripan S. Malhi,Jeffrey T. Rasic,Luiz Henrique Souza,Fabrício R. Santos,Anna-Sapfo Malaspinas,Martin Sikora,Rasmus Nielsen,Rasmus Nielsen,Yun S. Song,David J. Meltzer,David J. Meltzer,Eske Willerslev,Eske Willerslev,Eske Willerslev +60 more
TL;DR: Analysis of the oldest genomes suggests that there was an early split within Beringian populations, giving rise to the Northern and Southern lineages, and that the early population spread widely and rapidly suggests that their access to large portions of the hemisphere was essentially unrestricted, yet there are genomic and archaeological hints of an earlier human presence.
Journal ArticleDOI
Inference and analysis of population-specific fine-scale recombination maps across 26 diverse human populations.
Jeffrey P. Spence,Yun S. Song +1 more
TL;DR: Differences in the recombination landscape across the genome and between populations are driven by variation in the gene that encodes the DNA binding protein PRDM9, and a demography-aware method is developed and applied to 26 diverse human populations, inferring population-specific recombination maps.
Journal ArticleDOI
Model-based detection and analysis of introgressed Neanderthal ancestry in modern humans.
Matthias Steinrücken,Matthias Steinrücken,Matthias Steinrücken,Jeffrey P. Spence,Jack Kamm,Emilia Wieczorek,Yun S. Song +6 more
TL;DR: Evidence that selection against Neanderthal ancestry was due to higher genetic load in Neanderthals resulting from small effective population size, rather than widespread Dobzhansky–Müller incompatibilities (DMIs) that could contribute to reproductive isolation is found.
Proceedings Article
A Likelihood-Free Inference Framework for Population Genetic Data using Exchangeable Neural Networks.
TL;DR: This article developed an exchangeable neural network that performs summary statistic-free, likelihood-free inference for recombination hotspot testing, which can be applied in a black-box fashion across a variety of simulation-based tasks.