Integrated Transcriptome and Histone Modification Analysis Reveals NDV Infection Under Heat Stress Affects Bursa Development and Proliferation in Susceptible Chicken Line

Genetics and Genomic Regions Affecting Response to Newcastle Disease Virus Infection under Heat Stress in Layer Chickens

(2019) Perot Saelao et al.   Genes

De-ubiquitination of ELK-1 by USP17 potentiates mitogenic gene expression and cell proliferation

(2019) Charles Ducker et al.   NUCLEIC ACIDS RESEARCH

Effects of acute and chronic heat stress on the performance, egg quality, body temperature, and blood gas parameters of laying hens

(2019) Nathaniel W Barrett et al.   POULTRY SCIENCE

Novel insights into the host immune response of chicken Harderian gland tissue during Newcastle disease virus infection and heat treatment

(2018) Perot Saelao et al.   BMC Veterinary Research

Differential analysis of chromatin accessibility and histone modifications for predicting mouse developmental enhancers

(2018) Shaliu Fu et al.   NUCLEIC ACIDS RESEARCH

How can heat stress affect chicken meat quality? – a review

(2018) Gholamreza Zaboli et al.   POULTRY SCIENCE

Changes in bursal B cells in chicken during embryonic development and early life after hatching

(2018) Kwang Hyun Ko et al.   Scientific Reports

Integrated Proteomic and Transcriptomic Analysis of Differential Expression of Chicken Lung Tissue in Response to NDV Infection during Heat Stress

(2018) Perot Saelao et al.   Genes

Physiological responses to heat stress in two genetically distinct chicken inbred lines

(2017) Y Wang et al.   POULTRY SCIENCE

Single nucleotide variant discovery of highly inbred Leghorn and Fayoumi chicken breeds using pooled whole genome resequencing data reveals insights into phenotype differences

(2016) D. S. Fleming et al.   BMC GENOMICS

Enhancer Evolution across 20 Mammalian Species

(2015) Diego Villar et al.   CELL

Dynamics and function of distal regulatory elements during neurogenesis and neuroplasticity

(2015) Sudhir Thakurela et al.   GENOME RESEARCH

Integrative analysis of 111 reference human epigenomes

(2015) Anshul Kundaje et al.   NATURE

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

(2015) Mihaela Pertea et al.   NATURE BIOTECHNOLOGY

Coordinated international action to accelerate genome-to-phenome with FAANG, the Functional Annotation of Animal Genomes project

(2015) Leif Andersson et al.   GENOME BIOLOGY

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Genome-wide map of regulatory interactions in the human genome

(2014) Nastaran Heidari et al.   GENOME RESEARCH

Remodelling the extracellular matrix in development and disease

(2014) Caroline Bonnans et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

RNA-seq analysis revealed novel genes and signaling pathway associated with disease resistance to avian influenza virus infection in chickens1

(2014) Y. Wang et al.   POULTRY SCIENCE

Genome-wide association study of antibody response to Newcastle disease virus in chicken

(2013) Chenglong Luo et al.   BMC GENETICS

Effects of Newcastle disease virus vaccine antibodies on the shedding and transmission of challenge viruses

(2013) Patti J. Miller et al.   DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Architecture of the human regulatory network derived from ENCODE data

(2012) Mark B. Gerstein et al.   NATURE

ChromHMM: automating chromatin-state discovery and characterization

(2012) Jason Ernst et al.   NATURE METHODS

Systematic Localization of Common Disease-Associated Variation in Regulatory DNA

(2012) M. T. Maurano et al.   SCIENCE

A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

(2011) H. Li   BIOINFORMATICS

The ETS Family Transcription Factor ELK-1 Regulates Induction of the Cell Cycle-regulatory Genep21Waf1/Cip1and theBAXGene in Sodium Arsenite-exposed Human Keratinocyte HaCaT Cells

(2011) Soon Young Shin et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A cis-regulatory map of the Drosophila genome

(2011) Nicolas Nègre et al.   NATURE

Mapping and analysis of chromatin state dynamics in nine human cell types

(2011) Jason Ernst et al.   NATURE

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

Effect of heat and several additives related to stress levels on fluctuating asymmetry, heterophil:lymphocyte ratio, and tonic immobility duration in White Leghorn chicks

(2010) M. T. Prieto et al.   POULTRY SCIENCE

Histone H3K27ac separates active from poised enhancers and predicts developmental state

(2010) M. P. Creyghton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Across-line SNP association study of innate and adaptive immune response in laying hens

(2009) F. Biscarini et al.   ANIMAL GENETICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Potential etiologic and functional implications of genome-wide association loci for human diseases and traits

(2009) L. A. Hindorff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY