Predicting Cell Types and Genetic Variations Contributing to Disease by Combining GWAS and Epigenetic Data

Five Years of GWAS Discovery

(2012) Peter M. Visscher et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Dynamic epigenetic enhancer signatures reveal key transcription factors associated with monocytic differentiation states

(2012) T.-H. Pham et al.   BLOOD

Toward mapping the biology of the genome

(2012) S. Chanock   GENOME RESEARCH

Linking disease associations with regulatory information in the human genome

(2012) M. A. Schaub et al.   GENOME RESEARCH

GENCODE: The reference human genome annotation for The ENCODE Project

(2012) J. Harrow et al.   GENOME RESEARCH

Systematic Localization of Common Disease-Associated Variation in Regulatory DNA

(2012) M. T. Maurano et al.   SCIENCE

A 3-bp deletion in the HBS1L-MYB intergenic region on chromosome 6q23 is associated with HbF expression

(2011) J. J. Farrell et al.   BLOOD

GWAS Integrator: a bioinformatics tool to explore human genetic associations reported in published genome-wide association studies

(2011) Wei Yu et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

Epigenetic signatures distinguish multiple classes of enhancers with distinct cellular functions

(2011) Gabriel E. Zentner et al.   GENOME RESEARCH

Genome-wide association study of circulating retinol levels

(2011) Alison M. Mondul et al.   HUMAN MOLECULAR GENETICS

Gene-environment interaction for childhood asthma and exposure to farming in Central Europe

(2011) Markus J. Ege et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

A genome-wide association study of plasma total IgE concentrations in the Framingham Heart Study

(2011) Mark Granada et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

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

(2011) Jason Ernst et al.   NATURE

Genome-wide association study identifies three new susceptibility loci for adult asthma in the Japanese population

(2011) Tomomitsu Hirota et al.   NATURE GENETICS

Meta-analysis of genome-wide association studies of asthma in ethnically diverse North American populations

(2011) Carole Ober et al.   NATURE GENETICS

HaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants

(2011) L. D. Ward et al.   NUCLEIC ACIDS RESEARCH

Emerging patterns of epigenomic variation

(2011) Aleksandar Milosavljevic   TRENDS IN GENETICS

Atopy history and the genomics of wheezing after influenza vaccination in children 6–59 months of age

(2011) E. Kathryn Miller et al.   VACCINE

A User's Guide to the Encyclopedia of DNA Elements (ENCODE)

(2011)   PLOS BIOLOGY

Genome-Wide Association Study Identifies HLA-DP as a Susceptibility Gene for Pediatric Asthma in Asian Populations

(2011) Emiko Noguchi et al.   PLoS Genetics

ZINBA integrates local covariates with DNA-seq data to identify broad and narrow regions of enrichment, even within amplified genomic regions

(2011) Naim U Rashid et al.   GENOME BIOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Genome-wide analysis of histone modifications in human pancreatic islets

(2010) R. Bhandare et al.   GENOME RESEARCH

A unique H3K4me2 profile marks tissue-specific gene regulation

(2010) A. Pekowska et al.   GENOME RESEARCH

Genome-wide association study of asthma identifies RAD50-IL13 and HLA-DR/DQ regions

(2010) Xingnan Li et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

A map of human genome variation from population-scale sequencing

(2010) Richard M. Durbin et al.   NATURE

Discovery and characterization of chromatin states for systematic annotation of the human genome

(2010) Jason Ernst et al.   NATURE BIOTECHNOLOGY

The NIH Roadmap Epigenomics Mapping Consortium

(2010) Bradley E Bernstein et al.   NATURE BIOTECHNOLOGY

Histone variants — ancient wrap artists of the epigenome

(2010) Paul B. Talbert et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

A Large-Scale, Consortium-Based Genomewide Association Study of Asthma

(2010) Miriam F. Moffatt et al.   NEW ENGLAND JOURNAL OF MEDICINE

Unifying Candidate Gene and GWAS Approaches in Asthma

(2010) Sven Michel et al.   PLoS One

Genome-Wide and Follow-Up Studies Identify CEP68 Gene Variants Associated with Risk of Aspirin-Intolerant Asthma

(2010) Jeong-Hyun Kim et al.   PLoS One

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

Genome-wide Association Analysis Identifies PDE4D as an Asthma-Susceptibility Gene

(2009) Blanca E. Himes et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Genotype Imputation

(2009) Yun Li et al.   Annual Review of Genomics and Human Genetics

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

(2009) Chongzhi Zang et al.   BIOINFORMATICS

A pooling-based genome-wide analysis identifies new potential candidate genes for atopy in the European Community Respiratory Health Survey (ECRHS)

(2009) Francesc Castro-Giner et al.   BMC Medical Genetics

Histone modifications at human enhancers reflect global cell-type-specific gene expression

(2009) Nathaniel D. Heintzman et al.   NATURE

ChIP-seq accurately predicts tissue-specific activity of enhancers

(2009) Axel Visel et al.   NATURE

Variants ofDENND1BAssociated with Asthma in Children

(2009) Patrick M.A. Sleiman et al.   NEW ENGLAND JOURNAL OF MEDICINE

Genome-Wide Association Study Implicates Chromosome 9q21.31 as a Susceptibility Locus for Asthma in Mexican Children

(2009) Dana B. Hancock et al.   PLoS Genetics

Effect of Variation inCHI3L1on Serum YKL-40 Level, Risk of Asthma, and Lung Function

(2008) Carole Ober et al.   NEW ENGLAND JOURNAL OF MEDICINE

ChromaSig: A Probabilistic Approach to Finding Common Chromatin Signatures in the Human Genome

(2008) Gary Hon et al.   PLoS Computational Biology

Genome-Wide Scan on Total Serum IgE Levels Identifies FCER1A as Novel Susceptibility Locus

(2008) Stephan Weidinger et al.   PLoS Genetics

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY