Mammalian genomic regulatory regions predicted by utilizing human genomics, transcriptomics, and epigenetics data

Structure, mechanism, and regulation of polycomb repressive complex 2

(2017) Lindsay E. Moritz et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

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

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

Insulated Neighborhoods: Structural and Functional Units of Mammalian Gene Control

(2016) Denes Hnisz et al.   CELL

Production of hornless dairy cattle from genome-edited cell lines

(2016) Daniel F Carlson et al.   NATURE BIOTECHNOLOGY

G-quadruplex structures mark human regulatory chromatin

(2016) Robert Hänsel-Hertsch et al.   NATURE GENETICS

Modeling disease risk through analysis of physical interactions between genetic variants within chromatin regulatory circuitry

(2016) Olivia Corradin et al.   NATURE GENETICS

Pleiotropic Genes Affecting Carcass Traits in Bos indicus (Nellore) Cattle Are Modulators of Growth

(2016) Anirene G. T. Pereira et al.   PLoS One

PLAG1 and NCAPG-LCORL in livestock

(2015) Akiko Takasuga   ANIMAL SCIENCE JOURNAL

Progress and challenges in bioinformatics approaches for enhancer identification

(2015) Dimitrios Kleftogiannis et al.   BRIEFINGS IN BIOINFORMATICS

Enhancer Evolution across 20 Mammalian Species

(2015) Diego Villar et al.   CELL

Integrative analysis of 111 reference human epigenomes

(2015) Anshul Kundaje et al.   NATURE

A method to predict the impact of regulatory variants from DNA sequence

(2015) Dongwon Lee et al.   NATURE GENETICS

HaploReg v4: systematic mining of putative causal variants, cell types, regulators and target genes for human complex traits and disease

(2015) Lucas D. Ward et al.   NUCLEIC ACIDS RESEARCH

GWASdb v2: an update database for human genetic variants identified by genome-wide association studies

(2015) Mulin Jun Li et al.   NUCLEIC ACIDS RESEARCH

Bovine Genome Database: new tools for gleaning function from theBos taurusgenome

(2015) Christine G. Elsik et al.   NUCLEIC ACIDS RESEARCH

ENCODE data at the ENCODE portal

(2015) Cricket A. Sloan et al.   NUCLEIC ACIDS RESEARCH

The Ensembl Regulatory Build

(2015) Daniel R Zerbino et al.   GENOME BIOLOGY

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

(2015) Leif Andersson et al.   GENOME BIOLOGY

Multibreed genome wide association can improve precision of mapping causative variants underlying milk production in dairy cattle

(2014) Lesley-Ann Raven et al.   BMC GENOMICS

An atlas of active enhancers across human cell types and tissues

(2014) Robin Andersson et al.   NATURE

Principles of regulatory information conservation between mouse and human

(2014) Yong Cheng et al.   NATURE

A comparative encyclopedia of DNA elements in the mouse genome

(2014) Feng Yue et al.   NATURE

Comparative analysis of metazoan chromatin organization

(2014) Joshua W. K. Ho et al.   NATURE

A promoter-level mammalian expression atlas

(2014)   NATURE

Comparative analysis of regulatory information and circuits across distant species

(2014) Alan P. Boyle et al.   NATURE

Genetic and epigenetic fine mapping of causal autoimmune disease variants

(2014) Kyle Kai-How Farh et al.   NATURE

Transcriptional enhancers: from properties to genome-wide predictions

(2014) Daria Shlyueva et al.   NATURE REVIEWS GENETICS

Independent Polled Mutations Leading to Complex Gene Expression Differences in Cattle

(2014) Natalie Wiedemar et al.   PLoS One

The Genetic Architecture of Climatic Adaptation of Tropical Cattle

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

A Multi-Trait, Meta-analysis for Detecting Pleiotropic Polymorphisms for Stature, Fatness and Reproduction in Beef Cattle

(2014) Sunduimijid Bolormaa et al.   PLoS Genetics

A high-resolution map of the three-dimensional chromatin interactome in human cells

(2013) Fulai Jin et al.   NATURE

Novel Insights into the Bovine Polled Phenotype and Horn Ontogenesis in Bovidae

(2013) Aurélie Allais-Bonnet et al.   PLoS One

Disentangling the Many Layers of Eukaryotic Transcriptional Regulation

(2012) Katherine M. Lelli et al.   Annual Review of Genetics

A decade of 3C technologies: insights into nuclear organization

(2012) E. de Wit et al.   GENES & DEVELOPMENT

Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors

(2012) J. Wang et al.   GENOME RESEARCH

Analyses of pig genomes provide insight into porcine demography and evolution

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

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Architecture of the human regulatory network derived from ENCODE data

(2012) Mark B. Gerstein et al.   NATURE

5′ end–centered expression profiling using cap-analysis gene expression and next-generation sequencing

(2012) Hazuki Takahashi et al.   Nature Protocols

Transcription factors: from enhancer binding to developmental control

(2012) François Spitz et al.   NATURE REVIEWS GENETICS

Variants modulating the expression of a chromosome domain encompassing PLAG1 influence bovine stature

(2011) Latifa Karim et al.   NATURE GENETICS