Genomic evidence for the Pleistocene and recent population history of Native Americans

Continuity and Change in the Eastern Aleutian Archaeological Sequence

(2016)   HUMAN BIOLOGY

Origins of Aleuts and the Genetic Structure of Populations of the Archipelago: Molecular and Archaeological Perspectives

(2016)   HUMAN BIOLOGY

Evolution of the Pygmy Phenotype: Evidence of Positive Selection from Genome-wide Scans in African, Asian, and Melanesian Pygmies

(2016) Andrea Bamberg Migliano et al.   HUMAN BIOLOGY

scrm: efficiently simulating long sequences using the approximated coalescent with recombination

(2015) Paul R. Staab et al.   BIOINFORMATICS

A recent bottleneck of Y chromosome diversity coincides with a global change in culture

(2015) Monika Karmin et al.   GENOME RESEARCH

The Genetic Legacy of the Expansion of Turkic-Speaking Nomads across Eurasia

(2015) Bayazit Yunusbayev et al.   PLoS Genetics

ANGSD: Analysis of Next Generation Sequencing Data

(2014) Thorfinn Sand Korneliussen et al.   BMC BIOINFORMATICS

Population Genomics Reveal Recent Speciation and Rapid Evolutionary Adaptation in Polar Bears

(2014) Shiping Liu et al.   CELL

Error-prone polymerase activity causes multinucleotide mutations in humans

(2014) Kelley Harris et al.   GENOME RESEARCH

The genome of a Late Pleistocene human from a Clovis burial site in western Montana

(2014) Morten Rasmussen et al.   NATURE

Inferring human population size and separation history from multiple genome sequences

(2014) Stephan Schiffels et al.   NATURE GENETICS

Mitochondrial Genome Sequencing in Mesolithic North East Europe Unearths a New Sub-Clade within the Broadly Distributed Human Haplogroup C1

(2014) Clio Der Sarkissian et al.   PLoS One

Genome-Wide Analysis of Cold Adaptation in Indigenous Siberian Populations

(2014) Alexia Cardona et al.   PLoS One

Phenotypic Variation in Infants, Not Adults, Reflects Genotypic Variation among Chimpanzees and Bonobos

(2014) Naoki Morimoto et al.   PLoS One

Genome-wide evidence of Austronesian-Bantu admixture and cultural reversion in a hunter-gatherer group of Madagascar

(2014) D. Pierron et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The genetic prehistory of the New World Arctic

(2014) M. Raghavan et al.   SCIENCE

Late Pleistocene Human Skeleton and mtDNA Link Paleoamericans and Modern Native Americans

(2014) J. C. Chatters et al.   SCIENCE

The genetics of Mexico recapitulates Native American substructure and affects biomedical traits

(2014) A. Moreno-Estrada et al.   SCIENCE

Patterns of Admixture and Population Structure in Native Populations of Northwest North America

(2014) Paul Verdu et al.   PLoS Genetics

Population Genomic Analysis of Ancient and Modern Genomes Yields New Insights into the Genetic Ancestry of the Tyrolean Iceman and the Genetic Structure of Europe

(2014) Martin Sikora et al.   PLoS Genetics

RFMix: A Discriminative Modeling Approach for Rapid and Robust Local-Ancestry Inference

(2013) Brian K. Maples et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Genetic Evidence for Recent Population Mixture in India

(2013) Priya Moorjani et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Autosomal and uniparental portraits of the native populations of Sakha (Yakutia): implications for the peopling of Northeast Eurasia

(2013) Sardana A Fedorova et al.   BMC EVOLUTIONARY BIOLOGY

A Revised Timescale for Human Evolution Based on Ancient Mitochondrial Genomes

(2013) Qiaomei Fu et al.   CURRENT BIOLOGY

Estimating Variable Effective Population Sizes from Multiple Genomes: A Sequentially Markov Conditional Sampling Distribution Approach

(2013) S. Sheehan et al.   GENETICS

Genome-wide nucleosome map and cytosine methylation levels of an ancient human genome

(2013) J. S. Pedersen et al.   GENOME RESEARCH

Seeing the Wood for the Trees: A Minimal Reference Phylogeny for the Human Y Chromosome

(2013) Mannis van Oven et al.   HUMAN MUTATION

Accurate sex identification of ancient human remains using DNA shotgun sequencing

(2013) Pontus Skoglund et al.   JOURNAL OF ARCHAEOLOGICAL SCIENCE

Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse

(2013) Ludovic Orlando et al.   NATURE

The complete genome sequence of a Neanderthal from the Altai Mountains

(2013) Kay Prüfer et al.   NATURE

Predicting the molecular complexity of sequencing libraries

(2013) Timothy Daley et al.   NATURE METHODS

Ancient DNA Analysis of Mid-Holocene Individuals from the Northwest Coast of North America Reveals Different Evolutionary Paths for Mitogenomes

(2013) Yinqiu Cui et al.   PLoS One

The First Peopling of South America: New Evidence from Y-Chromosome Haplogroup Q

(2013) Vincenza Battaglia et al.   PLoS One

Identification of Polynesian mtDNA haplogroups in remains of Botocudo Amerindians from Brazil

(2013) V. F. Goncalves et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reconciling migration models to the Americas with the variation of North American native mitogenomes

(2013) A. Achilli et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Inferring Demographic History from a Spectrum of Shared Haplotype Lengths

(2013) Kelley Harris et al.   PLoS Genetics

Reconstructing the Population Genetic History of the Caribbean

(2013) Andrés Moreno-Estrada et al.   PLoS Genetics

On head lice and social interaction in archaic Andean coastal populations

(2013) Bernardo Arriaza et al.   International Journal of Paleopathology

Mitochondrial DNA and Y Chromosome Variation Provides Evidence for a Recent Common Ancestry between Native Americans and Indigenous Altaians

(2012) Matthew C. Dulik et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Estimating Kinship in Admixed Populations

(2012) Timothy Thornton et al.   AMERICAN JOURNAL OF HUMAN GENETICS

A “Copernican” Reassessment of the Human Mitochondrial DNA Tree from its Root

(2012) Doron M. Behar et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Improving ancient DNA read mapping against modern reference genomes

(2012) Mikkel Schubert et al.   BMC GENOMICS

Ancient Admixture in Human History

(2012) N. Patterson et al.   GENETICS

Reconstructing Native American population history

(2012) David Reich et al.   NATURE

An integrated map of genetic variation from 1,092 human genomes

(2012)   NATURE

Revising the human mutation rate: implications for understanding human evolution

(2012) Aylwyn Scally et al.   NATURE REVIEWS GENETICS

Temporal Patterns of Nucleotide Misincorporations and DNA Fragmentation in Ancient DNA

(2012) Susanna Sawyer et al.   PLoS One

Late Pleistocene climate change and the global expansion of anatomically modern humans

(2012) A. Eriksson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The half-life of DNA in bone: measuring decay kinetics in 158 dated fossils

(2012) M. E. Allentoft et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Clovis Age Western Stemmed Projectile Points and Human Coprolites at the Paisley Caves

(2012) D. L. Jenkins et al.   SCIENCE

Melanesian Blond Hair Is Caused by an Amino Acid Change in TYRP1

(2012) E. E. Kenny et al.   SCIENCE

Origins and Genetic Legacy of Neolithic Farmers and Hunter-Gatherers in Europe

(2012) P. Skoglund et al.   SCIENCE

A High-Coverage Genome Sequence from an Archaic Denisovan Individual

(2012) M. Meyer et al.   SCIENCE

A sequentially Markov conditional sampling distribution for structured populations with migration and recombination

(2012) Matthias Steinrücken et al.   THEORETICAL POPULATION BIOLOGY

Inference of Population Splits and Mixtures from Genome-Wide Allele Frequency Data

(2012) Joseph K. Pickrell et al.   PLoS Genetics

An Accurate Sequentially Markov Conditional Sampling Distribution for the Coalescent With Recombination

(2011) J. S. Paul et al.   GENETICS

The Caucasus as an Asymmetric Semipermeable Barrier to Ancient Human Migrations

(2011) B. Yunusbayev et al.   MOLECULAR BIOLOGY AND EVOLUTION

Testing for Ancient Admixture between Closely Related Populations

(2011) Eric Y. Durand et al.   MOLECULAR BIOLOGY AND EVOLUTION

Bayesian inference of ancient human demography from individual genome sequences

(2011) Ilan Gronau et al.   NATURE GENETICS

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

A linear complexity phasing method for thousands of genomes

(2011) Olivier Delaneau et al.   NATURE METHODS

Late Pleistocene colonization of North America from Northeast Asia: New insights from large-scale paleogeographic reconstructions

(2011) E. James Dixon   QUATERNARY INTERNATIONAL

The Buttermilk Creek Complex and the Origins of Clovis at the Debra L. Friedkin Site, Texas

(2011) M. R. Waters et al.   SCIENCE

An Aboriginal Australian Genome Reveals Separate Human Dispersals into Asia

(2011) M. Rasmussen et al.   SCIENCE

Early Holocene human remains from the Argentinean Pampas: Additional evidence for distinctive cranial morphology of early South Americans

(2010) Héctor M. Pucciarelli et al.   AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY

Robust relationship inference in genome-wide association studies

(2010) Ani Manichaikul et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

ABCtoolbox: a versatile toolkit for approximate Bayesian computations

(2010) Daniel Wegmann et al.   BMC BIOINFORMATICS

A Principled Approach to Deriving Approximate Conditional Sampling Distributions in Population Genetics Models with Recombination

(2010) Joshua S. Paul et al.   GENETICS

The initial peopling of the Americas: A growing number of founding mitochondrial genomes from Beringia

(2010) U. A. Perego et al.   GENOME RESEARCH

HaploGrep: a fast and reliable algorithm for automatic classification of mitochondrial DNA haplogroups

(2010) Anita Kloss-Brandstätter et al.   HUMAN MUTATION

The genome-wide structure of the Jewish people

(2010) Doron M. Behar et al.   NATURE

Integrating common and rare genetic variation in diverse human populations

(2010)   NATURE

Fine-scale recombination rate differences between sexes, populations and individuals

(2010) Augustine Kong et al.   NATURE

Genetic history of an archaic hominin group from Denisova Cave in Siberia

(2010) David Reich et al.   NATURE

Ancient human genome sequence of an extinct Palaeo-Eskimo

(2010) Morten Rasmussen et al.   NATURE

Testing Evolutionary and Dispersion Scenarios for the Settlement of the New World

(2010) Mark Hubbe et al.   PLoS One

Multiplexed DNA Sequence Capture of Mitochondrial Genomes Using PCR Products

(2010) Tomislav Maricic et al.   PLoS One

A Draft Sequence of the Neandertal Genome

(2010) R. E. Green et al.   SCIENCE

Climate Signatures in the Morphological Differentiation of Worldwide Modern Human Populations

(2009) Mark Hubbe et al.   Anatomical Record-Advances in Integrative Anatomy and Evolutionary Biology

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Distinctive Paleo-Indian Migration Routes from Beringia Marked by Two Rare mtDNA Haplogroups

(2009) Ugo A. Perego et al.   CURRENT BIOLOGY

Fast model-based estimation of ancestry in unrelated individuals

(2009) D. H. Alexander et al.   GENOME RESEARCH

Reconstructing Indian population history

(2009) David Reich et al.   NATURE

Discrepancy between Cranial and DNA Data of Early Americans: Implications for American Peopling

(2009) S. Ivan Perez et al.   PLoS One

Probing deeper into first American studies

(2009) T. D. Dillehay   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The peopling of America: Craniofacial shape variation on a continental scale and its interpretation from an interdisciplinary view

(2008) Rolando González-José et al.   AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY

SNAP: a web-based tool for identification and annotation of proxy SNPs using HapMap

(2008) A. D. Johnson et al.   BIOINFORMATICS

Northwest Siberian Khanty and Mansi in the junction of West and East Eurasian gene pools as revealed by uniparental markers

(2008) Ville N Pimenoff et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

New binary polymorphisms reshape and increase resolution of the human Y chromosomal haplogroup tree

(2008) T. M. Karafet et al.   GENOME RESEARCH

Updated comprehensive phylogenetic tree of global human mitochondrial DNA variation

(2008) Mannis van Oven et al.   HUMAN MUTATION

The Phylogeny of the Four Pan-American MtDNA Haplogroups: Implications for Evolutionary and Disease Studies

(2008) Alessandro Achilli et al.   PLoS One

A Three-Stage Colonization Model for the Peopling of the Americas

(2008) Andrew Kitchen et al.   PLoS One

A Reevaluation of the Native American MtDNA Genome Diversity and Its Bearing on the Models of Early Colonization of Beringia

(2008) Nelson J. R. Fagundes et al.   PLoS One

Updated Three-Stage Model for the Peopling of the Americas

(2008) Connie J. Mulligan et al.   PLoS One

Worldwide Human Relationships Inferred from Genome-Wide Patterns of Variation

(2008) J. Z. Li et al.   SCIENCE

Surfing during population expansions promotes genetic revolutions and structuration

(2008) Laurent Excoffier et al.   TRENDS IN ECOLOGY & EVOLUTION