Breeding history and candidate genes responsible for black skin of Xichuan black-bone chicken

Identification of differentially expressed genes and pathways between intramuscular and abdominal fat-derived preadipocyte differentiation of chickens in vitro

(2019) Meng Zhang et al.   BMC GENOMICS

Leptin and Leptin Receptor Genes Are Associated With Obesity-Related Traits Changes in Response to Aerobic Training Program

(2018) Agata Leońska-Duniec et al.   JOURNAL OF STRENGTH AND CONDITIONING RESEARCH

An intercross population study reveals genes associated with body size and plumage color in ducks

(2018) Zhengkui Zhou et al.   Nature Communications

Transcriptome Analysis in Spleen Reveals Differential Regulation of Response to Newcastle Disease Virus in Two Chicken Lines

(2018) Jibin Zhang et al.   Scientific Reports

Novel analysis of the Harderian gland transcriptome response to Newcastle disease virus in two inbred chicken lines

(2018) Melissa S. Deist et al.   Scientific Reports

Genetic Diversity, Molecular Phylogeny and Selection Evidence of Jinchuan Yak Revealed by Whole-Genome Resequencing

(2018) Daoliang Lan et al.   G3-Genes Genomes Genetics

Molecular cloning and characterization of the endothelin 3 gene in black bone sheep

(2018) Hesham Y. A. Darwish et al.   Journal of Animal Science and Biotechnology

Whole genome and transcriptome maps of the entirely black native Korean chicken breed Yeonsan Ogye

(2018) Jang-il Sohn et al.   GigaScience

Whole-genome resequencing reveals signatures of selection and timing of duck domestication

(2018) Zebin Zhang et al.   GigaScience

Non-Coding Transcriptome Maps across Twenty Tissues of the Korean Black Chicken, Yeonsan Ogye

(2018) Hyosun Hong et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format files

(2018) Chi Zhang et al.   BIOINFORMATICS

Mapping of Id locus for dermal shank melanin in a Chinese indigenous chicken breed

(2017) Jiguo Xu et al.   JOURNAL OF GENETICS

The origin and evolution of fibromelanosis in domesticated chickens: Genomic comparison of Indonesian Cemani and Chinese Silkie breeds

(2017) Anik Budhi Dharmayanthi et al.   PLoS One

Genome-wide DNA methylation profiles reveal novel candidate genes associated with meat quality at different age stages in hens

(2017) Meng Zhang et al.   Scientific Reports

Whole-Genome Resequencing of Holstein Bulls for Indel Discovery and Identification of Genes Associated with Milk Composition Traits in Dairy Cattle

(2017) Jianping Jiang et al.   PLoS One

Transcriptome analysis of the pectoral muscles of local chickens and commercial broilers using Ribo-Zero ribonucleic acid sequencing

(2017) Yanhua Zhang et al.   PLoS One

Identification of selection signals by large-scale whole-genome resequencing of cashmere goats

(2017) Xiaokai Li et al.   Scientific Reports

Evolutionary History, Selective Sweeps, and Deleterious Variation in the Dog

(2016) Adam H. Freedman et al.   Annual Review of Ecology Evolution and Systematics

Positive selection rather than relaxation of functional constraint drives the evolution of vision during chicken domestication

(2016) Ming-Shan Wang et al.   CELL RESEARCH

Transcriptome analysis of Dlm mutants reveals the potential formation mechanism of lesion mimic in wheat

(2016) Lei Li et al.   EUROPEAN JOURNAL OF PLANT PATHOLOGY

Reevaluation of early Holocene chicken domestication in northern China

(2016) Masaki Eda et al.   JOURNAL OF ARCHAEOLOGICAL SCIENCE

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Feralisation targets different genomic loci to domestication in the chicken

(2016) M. Johnsson et al.   Nature Communications

Genomic Analyses Reveal Potential Independent Adaptation to High Altitude in Tibetan Chickens

(2015) Ming-Shan Wang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Caveats about interpretation of ancient chicken mtDNAs from northern China

(2015) Min-Sheng Peng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Core questions in domestication research

(2015) Melinda A. Zeder   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Questioning new answers regarding Holocene chicken domestication in China

(2015) Joris Peters et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Human population dynamics in Europe over the Last Glacial Maximum

(2015) Miikka Tallavaara et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Quantitative expression of candidate genes affecting eggshell color

(2014) Chuanwei Zheng et al.   ANIMAL SCIENCE JOURNAL

Genome-wide patterns of copy number variation in the diversified chicken genomes using next-generation sequencing

(2014) Guoqiang Yi et al.   BMC GENOMICS

Identification and functional characterization of copy number variations in diverse chicken breeds

(2014) Ruili Han et al.   BMC GENOMICS

Whole-genome sequencing of the snub-nosed monkey provides insights into folivory and evolutionary history

(2014) Xuming Zhou et al.   NATURE GENETICS

Early Holocene chicken domestication in northern China

(2014) Hai Xiang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2014) M. Carneiro et al.   SCIENCE

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

(2014) Remco Bouckaert et al.   PLoS Computational Biology

Classic Selective Sweeps Revealed by Massive Sequencing in Cattle

(2014) Saber Qanbari et al.   PLoS Genetics

The SLC45 gene family of putative sugar transporters

(2013) Olga Vitavska et al.   MOLECULAR ASPECTS OF MEDICINE

The genomic signature of dog domestication reveals adaptation to a starch-rich diet

(2013) Erik Axelsson et al.   NATURE

Genomic analyses identify distinct patterns of selection in domesticated pigs and Tibetan wild boars

(2013) Mingzhou Li et al.   NATURE GENETICS

Long-lasting Inhibitory Effects of Cyclosporin A, but Not Tacrolimus, on OATP1B1- and OATP1B3-mediated Uptake

(2012) Yoshihisa Shitara et al.   Drug Metabolism and Pharmacokinetics

Chicken domestication: an updated perspective based on mitochondrial genomes

(2012) Y-W Miao et al.   HEREDITY

Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

(2012) Davis J. McCarthy et al.   NUCLEIC ACIDS RESEARCH

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

Specifying and Sustaining Pigmentation Patterns in Domestic and Wild Cats

(2012) C. B. Kaelin et al.   SCIENCE

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

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

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Chicken domestication: From archeology to genomics

(2011) Michèle Tixier-Boichard et al.   COMPTES RENDUS BIOLOGIES

Gene Duplication of endothelin 3 Is Closely Correlated with the Hyperpigmentation of the Internal Organs ( Fibromelanosis ) in Silky Chickens

(2011) Ai Shinomiya et al.   GENETICS

CNVnator: An approach to discover, genotype, and characterize typical and atypical CNVs from family and population genome sequencing

(2011) A. Abyzov et al.   GENOME RESEARCH

Homozygosity Mapping and Whole-Exome Sequencing to Detect SLC45A2 and G6PC3 Mutations in a Single Patient with Oculocutaneous Albinism and Neutropenia

(2011) Andrew R. Cullinane et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

Inference of human population history from individual whole-genome sequences

(2011) Heng Li et al.   NATURE

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

(2011) Mark A DePristo et al.   NATURE GENETICS

A Complex Genomic Rearrangement Involving the Endothelin 3 Locus Causes Dermal Hyperpigmentation in the Chicken

(2011) Ben Dorshorst et al.   PLoS Genetics

GCTA: A Tool for Genome-wide Complex Trait Analysis

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

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

(2010) A. McKenna et al.   GENOME RESEARCH

Whole-genome resequencing reveals loci under selection during chicken domestication

(2010) Carl-Johan Rubin et al.   NATURE

ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data

(2010) K. Wang et al.   NUCLEIC ACIDS RESEARCH

Fast model-based estimation of ancestry in unrelated individuals

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

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

BreakDancer: an algorithm for high-resolution mapping of genomic structural variation

(2009) Ken Chen et al.   NATURE METHODS

The Last Glacial Maximum

(2009) P. U. Clark et al.   SCIENCE

Physicochemical characterisation and antioxidant activity of melanin from the muscles of Taihe Black-bone silky fowl (Gallus gallus domesticus Brisson)

(2008) Yong-gang Tu et al.   FOOD CHEMISTRY