Inferring Population Size History from Large Samples of Genome-Wide Molecular Data - An Approximate Bayesian Computation Approach

Inferring Bottlenecks from Genome-Wide Samples of Short Sequence Blocks

(2015) L. Bunnefeld et al.   GENETICS

Examining Phylogenetic Relationships Among Gibbon Genera Using Whole Genome Sequence Data Using an Approximate Bayesian Computation Approach

(2015) K. R. Veeramah et al.   GENETICS

Exploring population size changes using SNP frequency spectra

(2015) Xiaoming Liu et al.   NATURE GENETICS

Demographic inference using genetic data from a single individual: Separating population size variation from population structure

(2015) Olivier Mazet et al.   THEORETICAL POPULATION BIOLOGY

Descartes’ rule of signs and the identifiability of population demographic models from genomic variation data

(2014) Anand Bhaskar et al.   ANNALS OF STATISTICS

Detecting past changes of effective population size

(2014) Natacha Nikolic et al.   Evolutionary Applications

Whole-genome sequencing of 234 bulls facilitates mapping of monogenic and complex traits in cattle

(2014) Hans D Daetwyler et al.   NATURE GENETICS

Inferring human population size and separation history from multiple genome sequences

(2014) Stephan Schiffels et al.   NATURE GENETICS

Drastic population fluctuations explain the rapid extinction of the passenger pigeon

(2014) C.-M. Hung et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs

(2014) R. E. Green et al.   SCIENCE

The impact of agricultural emergence on the genetic history of African rainforest hunter-gatherers and agriculturalists

(2014) Etienne Patin et al.   Nature Communications

A General Approach for Haplotype Phasing across the Full Spectrum of Relatedness

(2014) Jared O'Connell et al.   PLoS Genetics

Accurate Estimation of Effective Population Size in the Korean Dairy Cattle Based on Linkage Disequilibrium Corrected by Genomic Relationship Matrix

(2013) Dong-Hyun Shin et al.   ASIAN-AUSTRALASIAN JOURNAL OF ANIMAL SCIENCES

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

(2013) S. Sheehan et al.   GENETICS

Inferring population size changes with sequence and SNP data: lessons from human bottlenecks

(2013) L M Gattepaille et al.   HEREDITY

Inferring Demography from Runs of Homozygosity in Whole-Genome Sequence, with Correction for Sequence Errors

(2013) Iona M. MacLeod et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Confounding Effect of Population Structure on Bayesian Skyline Plot Inferences of Demographic History

(2013) Rasmus Heller et al.   PLoS One

A Comparative Review of Dimension Reduction Methods in Approximate Bayesian Computation

(2013) M. G. B. Blum et al.   STATISTICAL SCIENCE

Demographic Divergence History of Pied Flycatcher and Collared Flycatcher Inferred from Whole-Genome Re-sequencing Data

(2013) Krystyna Nadachowska-Brzyska et al.   PLoS Genetics

Inferring Demographic History from a Spectrum of Shared Haplotype Lengths

(2013) Kelley Harris et al.   PLoS Genetics

Robust Demographic Inference from Genomic and SNP Data

(2013) Laurent Excoffier et al.   PLoS Genetics

Estimating demographic parameters from large-scale population genomic data using Approximate Bayesian Computation

(2012) Sen Li et al.   BMC GENETICS

Demographic Inference Using Spectral Methods on SNP Data, with an Analysis of the Human Out-of-Africa Expansion

(2012) S. Lukic et al.   GENETICS

Estimation of historical effective population size using linkage disequilibria with marker data

(2012) L.J. Corbin et al.   JOURNAL OF ANIMAL BREEDING AND GENETICS

Inferring the History of Population Size Change from Genome-Wide SNP Data

(2012) Christoph Theunert et al.   MOLECULAR BIOLOGY AND EVOLUTION

Recent population decline and selection shape diversity of taxol-related genes

(2012) C. BURGARELLA et al.   MOLECULAR ECOLOGY

Analyses of pig genomes provide insight into porcine demography and evolution

(2012) Martien A. M. Groenen et al.   NATURE

Whole-genome sequencing of giant pandas provides insights into demographic history and local adaptation

(2012) Shancen Zhao et al.   NATURE GENETICS

SNP Calling, Genotype Calling, and Sample Allele Frequency Estimation from New-Generation Sequencing Data

(2012) Rasmus Nielsen et al.   PLoS One

Genetic data suggest a natural prehuman origin of open habitats in northern Madagascar and question the deforestation narrative in this region

(2012) E. Quemere et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

abc: an R package for approximate Bayesian computation (ABC)

(2012) Katalin Csilléry et al.   Methods in Ecology and Evolution

Genome-Wide Analysis of the World's Sheep Breeds Reveals High Levels of Historic Mixture and Strong Recent Selection

(2012) James W. Kijas et al.   PLOS BIOLOGY

Genetic Variants in REC8, RNF212, and PRDM9 Influence Male Recombination in Cattle

(2012) Cynthia Sandor et al.   PLoS Genetics

Skyline-plot methods for estimating demographic history from nucleotide sequences

(2011) SIMON Y. W. HO et al.   Molecular Ecology Resources

Inference of human population history from individual whole-genome sequences

(2011) Heng Li et al.   NATURE

Species-specific responses of Late Quaternary megafauna to climate and humans

(2011) Eline D. Lorenzen et al.   NATURE

Dual Origins of Dairy Cattle Farming – Evidence from a Comprehensive Survey of European Y-Chromosomal Variation

(2011) Ceiridwen J. Edwards et al.   PLoS One

GCTA: A Tool for Genome-wide Complex Trait Analysis

(2010) Jian Yang et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Demographic History of Oceania Inferred from Genome-wide Data

(2010) Andreas Wollstein et al.   CURRENT BIOLOGY

The Confounding Effects of Population Structure, Genetic Diversity and the Sampling Scheme on the Detection and Quantification of Population Size Changes

(2010) L. Chikhi et al.   GENETICS

Effective population size of an indigenous Swiss cattle breed estimated from linkage disequilibrium

(2010) C. Flury et al.   JOURNAL OF ANIMAL BREEDING AND GENETICS

Distinguishing between population bottleneck and population subdivision by a Bayesian model choice procedure

(2010) BENJAMIN M. PETER et al.   MOLECULAR ECOLOGY

Insights into the Genetic History of French Cattle from Dense SNP Data on 47 Worldwide Breeds

(2010) Mathieu Gautier et al.   PLoS One

Approximate Bayesian Computation (ABC) in practice

(2010) Katalin Csilléry et al.   TRENDS IN ECOLOGY & EVOLUTION

Linkage Disequilibrium Between Loci With Unknown Phase

(2009) A. R. Rogers et al.   GENETICS

Genome-Wide Survey of SNP Variation Uncovers the Genetic Structure of Cattle Breeds

(2009) et al.   SCIENCE

Non-linear regression models for Approximate Bayesian Computation

(2009) Michael G. B. Blum et al.   STATISTICS AND COMPUTING

Inferring the Joint Demographic History of Multiple Populations from Multidimensional SNP Frequency Data

(2009) Ryan N. Gutenkunst et al.   PLoS Genetics

Inferring population history with DIY ABC: a user-friendly approach to approximate Bayesian computation

(2008) Jean-Marie Cornuet et al.   BIOINFORMATICS

Domestication and early agriculture in the Mediterranean Basin: Origins, diffusion, and impact

(2008) M. A. Zeder   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA