Inference of recombination maps from a single pair of genomes and its application to ancient samples

Molecular Evolution at a Meiosis Gene Mediates Species Differences in the Rate and Patterning of Recombination

(2018) Cara L. Brand et al.   CURRENT BIOLOGY

High-throughput inference of pairwise coalescence times identifies signals of selection and enriched disease heritability

(2018) Pier Francesco Palamara et al.   NATURE GENETICS

Fine-Scale Recombination Maps of Fungal Plant Pathogens Reveal Dynamic Recombination Landscapes and Intragenic Hotspots

(2017) Eva H. Stukenbrock et al.   GENETICS

Population Genomics Reveals Speciation and Introgression between Brown Norway Rats and Their Sibling Species

(2017) Huajing Teng et al.   MOLECULAR BIOLOGY AND EVOLUTION

Effects of Demographic History on the Detection of Recombination Hotspots from Linkage Disequilibrium

(2017) Amy L Dapper et al.   MOLECULAR BIOLOGY AND EVOLUTION

Whole-genome patterns of linkage disequilibrium across flycatcher populations clarify the causes and consequences of fine-scale recombination rate variation in birds

(2017) Takeshi Kawakami et al.   MOLECULAR ECOLOGY

Variation in recombination frequency and distribution across eukaryotes: patterns and processes

(2017) Jessica Stapley et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Natural selection shaped the rise and fall of passenger pigeon genomic diversity

(2017) Gemma G. R. Murray et al.   SCIENCE

Ancient genomic changes associated with domestication of the horse

(2017) Pablo Librado et al.   SCIENCE

A high-coverage Neandertal genome from Vindija Cave in Croatia

(2017) Kay Prüfer et al.   SCIENCE

Fine-Scale Recombination Maps of Fungal Plant Pathogens Reveal Dynamic Recombination Landscapes and Intragenic Hotspots

(2017) Eva H. Stukenbrock et al.   GENETICS

Two-Locus Likelihoods Under Variable Population Size and Fine-Scale Recombination Rate Estimation

(2016) J. A. Kamm et al.   GENETICS

Robust and scalable inference of population history from hundreds of unphased whole genomes

(2016) Jonathan Terhorst et al.   NATURE GENETICS

Determinants of genetic diversity

(2016) Hans Ellegren et al.   NATURE REVIEWS GENETICS

A genetic method for dating ancient genomes provides a direct estimate of human generation interval in the last 45,000 years

(2016) Priya Moorjani et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ancient DNA and human history

(2016) Montgomery Slatkin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2015) Paul R. Staab et al.   BIOINFORMATICS

The Impact of Recombination Hotspots on Genome Evolution of a Fungal Plant Pathogen

(2015) D. Croll et al.   GENETICS

The Drosophila Genome Nexus: A Population Genomic Resource of 623 Drosophila melanogaster Genomes, Including 197 from a Single Ancestral Range Population

(2015) Justin B. Lack et al.   GENETICS

Natural Selection and Recombination Rate Variation Shape Nucleotide Polymorphism Across the Genomes of Three Related Populus Species

(2015) J. Wang et al.   GENETICS

The SMC' Is a Highly Accurate Approximation to the Ancestral Recombination Graph

(2015) P. R. Wilton et al.   GENETICS

Recombining without Hotspots: A Comprehensive Evolutionary Portrait of Recombination in Two Closely Related Species ofDrosophila

(2015) Caiti S. Smukowski Heil et al.   Genome Biology and Evolution

Quantification of GC-biased gene conversion in the human genome

(2015) Sylvain Glémin et al.   GENOME RESEARCH

Recombination Rate Variation Modulates Gene Sequence Evolution Mainly via GC-Biased Gene Conversion, Not Hill–Robertson Interference, in an Avian System

(2015) Paulina Bolívar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genome-wide patterns and properties of de novo mutations in humans

(2015) Laurent C Francioli et al.   NATURE GENETICS

Stable recombination hotspots in birds

(2015) S. Singhal et al.   SCIENCE

The Drosophila Genome Nexus: A Population Genomic Resource of 623 Drosophila melanogaster Genomes, Including 197 from a Single Ancestral Range Population

(2015) Justin B. Lack et al.   GENETICS

Unraveling recombination rate evolution using ancestral recombination maps

(2014) Kasper Munch et al.   BIOESSAYS

Genome sequence of a 45,000-year-old modern human from western Siberia

(2014) Qiaomei Fu et al.   NATURE

Inferring human population size and separation history from multiple genome sequences

(2014) Stephan Schiffels et al.   NATURE GENETICS

Introgression from Domestic Goat Generated Variation at the Major Histocompatibility Complex of Alpine Ibex

(2014) Christine Grossen et al.   PLoS Genetics

Speciation and Introgression between Mimulus nasutus and Mimulus guttatus

(2014) Yaniv Brandvain et al.   PLoS Genetics

Genome-Wide Inference of Ancestral Recombination Graphs

(2014) Matthew D. Rasmussen et al.   PLoS Genetics

zipHMMlib: a highly optimised HMM library exploiting repetitions in the input to speed up the forward algorithm

(2013) Andreas Sand et al.   BMC BIOINFORMATICS

A fine-scale recombination map of the human-chimpanzee ancestor reveals faster change in humans than in chimpanzees and a strong impact of GC-biased gene conversion

(2013) K. Munch et al.   GENOME RESEARCH

Bio++: Efficient Extensible Libraries and Tools for Computational Molecular Evolution

(2013) Laurent Guéguen et al.   MOLECULAR BIOLOGY AND EVOLUTION

The complete genome sequence of a Neanderthal from the Altai Mountains

(2013) Kay Prüfer et al.   NATURE

Meiotic recombination in mammals: localization and regulation

(2013) Frédéric Baudat et al.   NATURE REVIEWS GENETICS

Genomic signatures of selection at linked sites: unifying the disparity among species

(2013) Asher D. Cutter et al.   NATURE REVIEWS GENETICS

Population Demographic History Can Cause the Appearance of Recombination Hotspots

(2012) Henry R. Johnston et al.   AMERICAN JOURNAL OF HUMAN GENETICS

A Fine-Scale Chimpanzee Genetic Map from Population Sequencing

(2012) A. Auton et al.   SCIENCE

Evolution of an MCM Complex in Flies That Promotes Meiotic Crossovers by Blocking BLM Helicase

(2012) K. P. Kohl et al.   SCIENCE

A High-Coverage Genome Sequence from an Archaic Denisovan Individual

(2012) M. Meyer et al.   SCIENCE

Genome-Wide Fine-Scale Recombination Rate Variation in Drosophila melanogaster

(2012) Andrew H. Chan et al.   PLoS Genetics

The Many Landscapes of Recombination in Drosophila melanogaster

(2012) Josep M. Comeron et al.   PLoS Genetics

The Role of GC-Biased Gene Conversion in Shaping the Fastest Evolving Regions of the Human Genome

(2011) D. Kostka et al.   MOLECULAR BIOLOGY AND EVOLUTION

Inference of human population history from individual whole-genome sequences

(2011) Heng Li et al.   NATURE

Genetic Analysis of Genome-Scale Recombination Rate Evolution in House Mice

(2011) Beth L. Dumont et al.   PLoS Genetics

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

(2010) Augustine Kong et al.   NATURE

Drive Against Hotspot Motifs in Primates Implicates the PRDM9 Gene in Meiotic Recombination

(2010) S. Myers et al.   SCIENCE

PRDM9 Is a Major Determinant of Meiotic Recombination Hotspots in Humans and Mice

(2010) F. Baudat et al.   SCIENCE

Biased Gene Conversion and the Evolution of Mammalian Genomic Landscapes

(2009) Laurent Duret et al.   Annual Review of Genomics and Human Genetics

Reconstructing Indian population history

(2009) David Reich et al.   NATURE

Linkage disequilibrium — understanding the evolutionary past and mapping the medical future

(2008) Montgomery Slatkin   NATURE REVIEWS GENETICS