Signatures of Selection for Environmental Adaptation and Zebu × Taurine Hybrid Fitness in East African Shorthorn Zebu

Locus-specific ancestry to detect recent response to selection in admixed Swiss Fleckvieh cattle

(2016) N. Khayatzadeh et al.   ANIMAL GENETICS

Genome-wide analysis reveals signatures of selection for important traits in domestic sheep from different ecoregions

(2016) Zhaohua Liu et al.   BMC GENOMICS

- Invited Review - African Indigenous Cattle: Unique Genetic Resources in a Rapidly Changing World

(2015) Okeyo Mwai et al.   ASIAN-AUSTRALASIAN JOURNAL OF ANIMAL SCIENCES

Whole-Genome Resequencing Analysis of Hanwoo and Yanbian Cattle to Identify Genome-Wide SNPs and Signatures of Selection

(2015) Jung-Woo Choi et al.   MOLECULES AND CELLS

Evidence of long-term gene flow and selection during domestication from analyses of Eurasian wild and domestic pig genomes

(2015) Laurent A F Frantz et al.   NATURE GENETICS

Genetic resistance: tolerance to vector-borne diseases and the prospects and challenges of genomics

(2015) H. BAHBAHANI et al.   REVUE SCIENTIFIQUE ET TECHNIQUE-OFFICE INTERNATIONAL DES EPIZOOTIES

Signatures of positive selection in East African Shorthorn Zebu: A genome-wide single nucleotide polymorphism analysis

(2015) Hussain Bahbahani et al.   Scientific Reports

Selection for complex traits leaves little or no classic signatures of selection

(2014) Kathryn E Kemper et al.   BMC GENOMICS

Genome-wide analysis reveals the ancient and recent admixture history of East African Shorthorn Zebu from Western Kenya

(2014) M N Mbole-Kariuki et al.   HEREDITY

Mapping signatures of positive selection in the genome of livestock

(2014) Saber Qanbari et al.   Livestock Science

Genomic Signatures Reveal New Evidences for Selection of Important Traits in Domestic Cattle

(2014) Lingyang Xu et al.   MOLECULAR BIOLOGY AND EVOLUTION

Adaptive admixture in the West African bovine hybrid zone: insight from the Borgou population

(2014) Laurence Flori et al.   MOLECULAR ECOLOGY

Parasite Co-Infections and Their Impact on Survival of Indigenous Cattle

(2014) Samuel M. Thumbi et al.   PLoS One

The Genetic Architecture of Climatic Adaptation of Tropical Cattle

(2014) Laercio R. Porto-Neto et al.   PLoS One

Rabbit genome analysis reveals a polygenic basis for phenotypic change during domestication

(2014) M. Carneiro et al.   SCIENCE

Classic Selective Sweeps Revealed by Massive Sequencing in Cattle

(2014) Saber Qanbari et al.   PLoS Genetics

Worldwide Patterns of Ancestry, Divergence, and Admixture in Domesticated Cattle

(2014) Jared E. Decker et al.   PLoS Genetics

Genetic susceptibility to infectious disease in East African Shorthorn Zebu: a genome-wide analysis of the effect of heterozygosity and exotic introgression

(2013) Gemma GR Murray et al.   BMC EVOLUTIONARY BIOLOGY

Detection of selective sweeps in cattle using genome-wide SNP data

(2013) Holly R Ramey et al.   BMC GENOMICS

Genomic divergence of zebu and taurine cattle identified through high-density SNP genotyping

(2013) Laercio R Porto-Neto et al.   BMC GENOMICS

Design and descriptive epidemiology of the Infectious Diseases of East African Livestock (IDEAL) project, a longitudinal calf cohort study in western Kenya

(2013) Barend Mark de Clare Bronsvoort et al.   BMC Veterinary Research

One-Step Generation of Mice Carrying Mutations in Multiple Genes by CRISPR/Cas-Mediated Genome Engineering

(2013) Haoyi Wang et al.   CELL

Whole genome sequencing of Gir cattle for identifying polymorphisms and loci under selection

(2013) Xiaoping Liao et al.   GENOME

Life history trade-offs at a single locus maintain sexually selected genetic variation

(2013) Susan E. Johnston et al.   NATURE

Detecting Loci under Recent Positive Selection in Dairy and Beef Cattle by Combining Different Genome-Wide Scan Methods

(2013) Yuri Tani Utsunomiya et al.   PLoS One

Identification of Candidate Transcription Factor Binding Sites in the Cattle Genome

(2013) Derek M. Bickhart et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

rehh: an R package to detect footprints of selection in genome-wide SNP data from haplotype structure

(2012) Mathieu Gautier et al.   BIOINFORMATICS

A genome-wide scan of selective sweeps in two broiler chicken lines divergently selected for abdominal fat content

(2012) Hui Zhang et al.   BMC GENOMICS

Ensembl 2013

(2012) Paul Flicek et al.   NUCLEIC ACIDS RESEARCH

A Quasi-Exclusive European Ancestry in the Senepol Tropical Cattle Breed Highlights the Importance of the slick Locus in Tropical Adaptation

(2012) Laurence Flori et al.   PLoS One

Whole-genome resequencing of two elite sires for the detection of haplotypes under selection in dairy cattle

(2012) D. M. Larkin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Strong signatures of selection in the domestic pig genome

(2012) C.-J. Rubin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Efficient TALEN-mediated gene knockout in livestock

(2012) D. F. Carlson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Application of site and haplotype-frequency based approaches for detecting selection signatures in cattle

(2011) Saber Qanbari et al.   BMC GENOMICS

Hot topic: Performance of bovine high-density genotyping platforms in Holsteins and Jerseys

(2011) G. Rincon et al.   JOURNAL OF DAIRY SCIENCE

Molecular Mechanisms of Long Noncoding RNAs

(2011) Kevin C. Wang et al.   MOLECULAR CELL

Footprints of selection in the ancestral admixture of a New World Creole cattle breed

(2011) MATHIEU GAUTIER et al.   MOLECULAR ECOLOGY

Genome-wide association mapping identifies the genetic basis of discrete and quantitative variation in sexual weaponry in a wild sheep population

(2011) SUSAN E. JOHNSTON et al.   MOLECULAR ECOLOGY

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

(2011) Mark A DePristo et al.   NATURE GENETICS

Ensembl BioMarts: a hub for data retrieval across taxonomic space

(2011) R. J. Kinsella et al.   Database-The Journal of Biological Databases and Curation

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

(2010) Heng Li et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

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

(2010) A. McKenna et al.   GENOME RESEARCH

Myelin ingestion by macrophages promotes their motility and capacity to recruit myeloid cells

(2010) Marloes van Zwam et al.   JOURNAL OF NEUROIMMUNOLOGY

Whole-genome resequencing reveals loci under selection during chicken domestication

(2010) Carl-Johan Rubin et al.   NATURE

A method and server for predicting damaging missense mutations

(2010) Ivan A Adzhubei et al.   NATURE METHODS

The HSP70 chaperone machinery: J proteins as drivers of functional specificity

(2010) Harm H. Kampinga et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

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

(2010) Mathieu Gautier et al.   PLoS One

A Composite of Multiple Signals Distinguishes Causal Variants in Regions of Positive Selection

(2010) S. R. Grossman et al.   SCIENCE

INSL3/RXFP2 Signaling in Testicular Descent

(2009) Shu Feng et al.   Annals of the New York Academy of Sciences

A whole genome Bayesian scan for adaptive genetic divergence in West African cattle

(2009) Mathieu Gautier et al.   BMC GENOMICS

Fast model-based estimation of ancestry in unrelated individuals

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

Zebu Cattle Are an Exclusive Legacy of the South Asia Neolithic

(2009) S. Chen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Long non-coding RNAs: insights into functions

(2009) Tim R. Mercer et al.   NATURE REVIEWS GENETICS

Development and Characterization of a High Density SNP Genotyping Assay for Cattle

(2009) Lakshmi K. Matukumalli et al.   PLoS One

The Genome Response to Artificial Selection: A Case Study in Dairy Cattle

(2009) Laurence Flori et al.   PLoS One

The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution

(2009) et al.   SCIENCE

Estimating Local Ancestry in Admixed Populations

(2008) Sriram Sankararaman et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Man1, an inner nuclear membrane protein, regulates left-right axis formation by controlling nodal signaling in a node-independent manner

(2008) Akihiko Ishimura et al.   DEVELOPMENTAL DYNAMICS

Origin of INSL3-mediated testicular descent in therian mammals

(2008) J.-I. Park et al.   GENOME RESEARCH

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

(2008) Da Wei Huang et al.   NUCLEIC ACIDS RESEARCH