Southern African ancient genomes estimate modern human divergence to 350,000 to 260,000 years ago

The study of human Y chromosome variation through ancient DNA

(2017) Toomas Kivisild   HUMAN GENETICS

Tracing the peopling of the world through genomics

(2017) Rasmus Nielsen et al.   NATURE

New fossils from Jebel Irhoud, Morocco and the pan-African origin of Homo sapiens

(2017) Jean-Jacques Hublin et al.   NATURE

Dispersals and genetic adaptation of Bantu-speaking populations in Africa and North America

(2017) Etienne Patin et al.   SCIENCE

Population genetic analysis of the DARC locus (Duffy) reveals adaptation from standing variation associated with malaria resistance in humans

(2017) Kimberly F. McManus et al.   PLoS Genetics

Homo naledi and Pleistocene hominin evolution in subequatorial Africa

(2017) Lee R Berger et al.   eLife

Refining the Y chromosome phylogeny with southern African sequences

(2016) Chiara Barbieri et al.   HUMAN GENETICS

The disappearing San of southeastern Africa and their genetic affinities

(2016) Carina M. Schlebusch et al.   HUMAN GENETICS

Genomic insights into the peopling of the Southwest Pacific

(2016) Pontus Skoglund et al.   NATURE

The Simons Genome Diversity Project: 300 genomes from 142 diverse populations

(2016) Swapan Mallick et al.   NATURE

Going global by adapting local: A review of recent human adaptation

(2016) S. Fan et al.   SCIENCE

Bayesian Analysis of Radiocarbon Dates

(2016) Christopher Bronk Ramsey   RADIOCARBON

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

(2015) Monika Karmin et al.   GENOME RESEARCH

On the importance of being structured: instantaneous coalescence rates and human evolution—lessons for ancestral population size inference?

(2015) O Mazet et al.   HEREDITY

A global reference for human genetic variation

(2015) Richard A. Gibbs et al.   NATURE

Ancient genomes link early farmers from Atapuerca in Spain to modern-day Basques

(2015) Torsten Günther et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ancient Ethiopian genome reveals extensive Eurasian admixture in Eastern Africa

(2015) M. Gallego Llorente et al.   SCIENCE

Second-generation PLINK: rising to the challenge of larger and richer datasets

(2015) Christopher C Chang et al.   GigaScience

Revised Timeline and Distribution of the Earliest Diverged Human Maternal Lineages in Southern Africa

(2015) Eva K. F. Chan et al.   PLoS One

ANGSD: Analysis of Next Generation Sequencing Data

(2014) Thorfinn Sand Korneliussen et al.   BMC BIOINFORMATICS

Lactase Persistence Alleles Reveal Partial East African Ancestry of Southern African Khoe Pastoralists

(2014) Gwenna Breton et al.   CURRENT BIOLOGY

First Ancient Mitochondrial Human Genome from a Prepastoralist Southern African

(2014) Alan G. Morris et al.   Genome Biology and Evolution

Ancient human genomes suggest three ancestral populations for present-day Europeans

(2014) Iosif Lazaridis et al.   NATURE

The African Genome Variation Project shapes medical genetics in Africa

(2014) Deepti Gurdasani et al.   NATURE

Inferring human population size and separation history from multiple genome sequences

(2014) Stephan Schiffels et al.   NATURE GENETICS

Evidence for Site-Specific Occupancy of the Mitochondrial Genome by Nuclear Transcription Factors

(2014) Georgi K. Marinov et al.   PLoS One

Ancient west Eurasian ancestry in southern and eastern Africa

(2014) J. K. Pickrell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genetic variation reveals large-scale population expansion and migration during the expansion of Bantu-speaking peoples

(2014) S. Li et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Genomic Diversity and Admixture Differs for Stone-Age Scandinavian Foragers and Farmers

(2014) P. Skoglund et al.   SCIENCE

Khoisan hunter-gatherers have been the largest population throughout most of modern-human demographic history

(2014) Hie Lim Kim et al.   Nature Communications

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

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

Unraveling the complex maternal history of Southern African Khoisan populations

(2013) Chiara Barbieri et al.   AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY

MtDNA control region variation affirms diversity and deep sub-structure in populations from southern Africa

(2013) Carina M Schlebusch et al.   BMC EVOLUTIONARY BIOLOGY

HAPLOFIND: A New Method for High-Throughput mtDNA Haplogroup Assignment

(2013) Dario Vianello et al.   HUMAN MUTATION

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

An ATP2B4 Polymorphism Protects Against Malaria in Pregnancy

(2013) George Bedu-Addo et al.   JOURNAL OF INFECTIOUS DISEASES

Upper Palaeolithic Siberian genome reveals dual ancestry of Native Americans

(2013) Maanasa Raghavan et al.   NATURE

The complete genome sequence of a Neanderthal from the Altai Mountains

(2013) Kay Prüfer et al.   NATURE

Complete mitochondrial genome sequence of a Middle Pleistocene cave bear reconstructed from ultrashort DNA fragments

(2013) J. Dabney et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SHCal13 Southern Hemisphere Calibration, 0–50,000 Years cal BP

(2013) Alan G Hogg et al.   RADIOCARBON

Pleistocene Homo and the updated Stone Age sequence of South Africa

(2013) Gerrit Dusseldorp et al.   SOUTH AFRICAN JOURNAL OF SCIENCE

Genetic Architecture of Skin and Eye Color in an African-European Admixed Population

(2013) Sandra Beleza et al.   PLoS Genetics

Ethiopian Genetic Diversity Reveals Linguistic Stratification and Complex Influences on the Ethiopian Gene Pool

(2012) Luca Pagani 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

Evolutionary History and Adaptation from High-Coverage Whole-Genome Sequences of Diverse African Hunter-Gatherers

(2012) Joseph Lachance et al.   CELL

Ancient Admixture in Human History

(2012) N. Patterson et al.   GENETICS

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

Genomic Variation in Seven Khoe-San Groups Reveals Adaptation and Complex African History

(2012) C. M. Schlebusch 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

The genetic prehistory of southern Africa

(2012) Joseph K. Pickrell et al.   Nature Communications

Human pigmentation genes under environmental selection

(2012) Richard A Sturm et al.   GENOME BIOLOGY

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Different contributions of ancient mitochondrial and Y-chromosomal lineages in ‘Karretjie people’ of the Great Karoo in South Africa

(2011) Carina M Schlebusch et al.   JOURNAL OF HUMAN GENETICS

The Expansion of mtDNA Haplogroup L3 within and out of Africa

(2011) P. Soares et al.   MOLECULAR BIOLOGY AND EVOLUTION

Bayesian inference of ancient human demography from individual genome sequences

(2011) Ilan Gronau et al.   NATURE GENETICS

Genetic evidence for archaic admixture in Africa

(2011) M. F. Hammer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Hunter-gatherer genomic diversity suggests a southern African origin for modern humans

(2011) B. M. Henn et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The global distribution of the Duffy blood group

(2011) Rosalind E. Howes et al.   Nature Communications

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Genotype–phenotype associations and human eye color

(2010) Désirée White et al.   JOURNAL OF HUMAN GENETICS

Estimation of Population Divergence Times from Non-Overlapping Genomic Sequences: Examples from Dogs and Wolves

(2010) P. Skoglund et al.   MOLECULAR BIOLOGY AND EVOLUTION

A map of human genome variation from population-scale sequencing

(2010) Richard M. Durbin et al.   NATURE

Association of Trypanolytic ApoL1 Variants with Kidney Disease in African Americans

(2010) G. Genovese et al.   SCIENCE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast model-based estimation of ancestry in unrelated individuals

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

The Dawn of Human Matrilineal Diversity

(2008) Doron M. Behar et al.   AMERICAN JOURNAL OF HUMAN GENETICS

A Complete Neandertal Mitochondrial Genome Sequence Determined by High-Throughput Sequencing

(2008) Richard E. Green et al.   CELL

Updated comprehensive phylogenetic tree of global human mitochondrial DNA variation

(2008) Mannis van Oven et al.   HUMAN MUTATION