Functionally Annotating Regulatory Elements in the Equine Genome Using Histone Mark ChIP-Seq

Physical Exercise and Epigenetic Modifications in Skeletal Muscle

(2019) Manuel Widmann et al.   SPORTS MEDICINE

Exploring the genetics of trotting racing ability in horses using a unique Nordic horse model

(2019) Brandon D. Velie et al.   BMC GENOMICS

Tracking Five Millennia of Horse Management with Extensive Ancient Genome Time Series

(2019) Antoine Fages et al.   CELL

Ten years of the horse reference genome: insights into equine biology, domestication and population dynamics in the post‐genome era

(2019) T. Raudsepp et al.   ANIMAL GENETICS

Dynamic evolution of regulatory element ensembles in primate CD4+ T cells

(2018) Charles G. Danko et al.   Nature Ecology & Evolution

Generation of an equine biobank to be used for Functional Annotation of Animal Genomes project

(2018) E. N. Burns et al.   ANIMAL GENETICS

UniProt: a worldwide hub of protein knowledge

(2018)   NUCLEIC ACIDS RESEARCH

STRING v11: protein–protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets

(2018) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

Functional Annotation of Animal Genomes (FAANG): Current Achievements and Roadmap

(2018) Elisabetta Giuffra et al.   Annual Review of Animal Biosciences

JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework

(2017) Aziz Khan et al.   NUCLEIC ACIDS RESEARCH

GO-FAANG meeting: a Gathering On Functional Annotation of Animal Genomes

(2016) Christopher K. Tuggle et al.   ANIMAL GENETICS

Is H3K4me3 instructive for transcription activation?

(2016) Françoise S. Howe et al.   BIOESSAYS

A comprehensive comparison of tools for differential ChIP-seq analysis

(2016) Sebastian Steinhauser et al.   BRIEFINGS IN BIOINFORMATICS

Histone Acetylome-wide Association Study of Autism Spectrum Disorder

(2016) Wenjie Sun et al.   CELL

deepTools2: a next generation web server for deep-sequencing data analysis

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

Regulation of Genome Architecture and Function by Polycomb Proteins

(2016) Marianne Entrevan et al.   TRENDS IN CELL BIOLOGY

The Ensembl gene annotation system

(2016) Bronwen L. Aken et al.   Database-The Journal of Biological Databases and Curation

Identification of altered cis-regulatory elements in human disease

(2015) Anthony Mathelier et al.   TRENDS IN GENETICS

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

(2015) Leif Andersson et al.   GENOME BIOLOGY

Regulatory and coding genome regions are enriched for trait associated variants in dairy and beef cattle

(2014) Lambros Koufariotis et al.   BMC GENOMICS

Applied equine genetics

(2014) C. J. Finno et al.   EQUINE VETERINARY JOURNAL

Pancreatic islet enhancer clusters enriched in type 2 diabetes risk-associated variants

(2014) Lorenzo Pasquali et al.   NATURE GENETICS

Congenital Hepatic Fibrosis in the Franches-Montagnes Horse Is Associated with the Polycystic Kidney and Hepatic Disease 1 (PKHD1) Gene

(2014) Michaela Drögemüller et al.   PLoS One

Modification of Enhancer Chromatin: What, How, and Why?

(2013) Eliezer Calo et al.   MOLECULAR CELL

Enhancers: five essential questions

(2013) Len A. Pennacchio et al.   NATURE REVIEWS GENETICS

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

(2012) S. G. Landt et al.   GENOME RESEARCH

Sequence Variations in Equine Candidate Genes For XX and XY Inherited Disorders of Sexual Development

(2012) S Pujar et al.   REPRODUCTION IN DOMESTIC ANIMALS

Exploring Massive, Genome Scale Datasets with the GenometriCorr Package

(2012) Alexander Favorov et al.   PLoS Computational Biology

Regulation of chromatin by histone modifications

(2011) Andrew J Bannister et al.   CELL RESEARCH

TP53 Mutations in Nonsmall Cell Lung Cancer

(2011) Akira Mogi et al.   JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Linkage of hyperkalaemic periodic paralysis in Quarter horses to the horse adult skeletal muscle sodium channel gene

(2010) J. A. RUDOLPH et al.   ANIMAL GENETICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Rapid innovation in ChIP-seq peak-calling algorithms is outdistancing benchmarking efforts

(2010) A. M. Szalkowski et al.   BRIEFINGS IN BIOINFORMATICS

Steroidogenic factor-1 (SF-1, NR5A1) and human disease

(2010) Bruno Ferraz-de-Souza et al.   MOLECULAR AND CELLULAR ENDOCRINOLOGY

Cell type specificity of chromatin organization mediated by CTCF and cohesin

(2010) Chunhui Hou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

A clustering approach for identification of enriched domains from histone modification ChIP-Seq data

(2009) Chongzhi Zang et al.   BIOINFORMATICS

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

CBP-mediated acetylation of histone H3 lysine 27 antagonizes Drosophila Polycomb silencing

(2009) F. Tie et al.   DEVELOPMENT

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals

(2009) Mitchell Guttman et al.   NATURE

Genome Sequence, Comparative Analysis, and Population Genetics of the Domestic Horse

(2009) C. M. Wade et al.   SCIENCE

Acetylation of non-histone proteins modulates cellular signalling at multiple levels

(2008) Stephanie Spange et al.   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY