Recommendations for the design and analysis of epigenome-wide association studies

Epigenome-wide association data implicate DNA methylation as an intermediary of genetic risk in rheumatoid arthritis

(2013) Yun Liu et al.   NATURE BIOTECHNOLOGY

From promises to practical strategies in epigenetic epidemiology

(2013) Jonathan Mill et al.   NATURE REVIEWS GENETICS

Differential variability improves the identification of cancer risk markers in DNA methylation studies profiling precursor cancer lesions

(2012) A. E. Teschendorff et al.   BIOINFORMATICS

DNA methylation arrays as surrogate measures of cell mixture distribution

(2012) Eugene Houseman et al.   BMC BIOINFORMATICS

Peripheral Blood Immune Cell Methylation Profiles Are Associated with Nonhematopoietic Cancers

(2012) D. C. Koestler et al.   CANCER EPIDEMIOLOGY BIOMARKERS & PREVENTION

Epigenetic Differences in Normal Colon Mucosa of Cancer Patients Suggest Altered Dietary Metabolic Pathways

(2012) M. L. Silviera et al.   Cancer Prevention Research

Bump hunting to identify differentially methylated regions in epigenetic epidemiology studies

(2012) Andrew E Jaffe et al.   INTERNATIONAL JOURNAL OF EPIDEMIOLOGY

DNA Methylation Dynamics during In Vivo Differentiation of Blood and Skin Stem Cells

(2012) Christoph Bock et al.   MOLECULAR CELL

A unique regulatory phase of DNA methylation in the early mammalian embryo

(2012) Zachary D. Smith et al.   NATURE

BLUEPRINT to decode the epigenetic signature written in blood

(2012) David Adams et al.   NATURE BIOTECHNOLOGY

Analysing and interpreting DNA methylation data

(2012) Christoph Bock   NATURE REVIEWS GENETICS

Differential DNA Methylation in Purified Human Blood Cells: Implications for Cell Lineage and Studies on Disease Susceptibility

(2012) Lovisa E. Reinius et al.   PLoS One

EpiExplorer: live exploration and global analysis of large epigenomic datasets

(2012) Konstantin Halachev et al.   GENOME BIOLOGY

BSmooth: from whole genome bisulfite sequencing reads to differentially methylated regions

(2012) Kasper D Hansen et al.   GENOME BIOLOGY

Bis-SNP: Combined DNA methylation and SNP calling for Bisulfite-seq data

(2012) Yaping Liu et al.   GENOME BIOLOGY

Gel-free multiplexed reduced representation bisulfite sequencing for large-scale DNA methylation profiling

(2012) Patrick Boyle et al.   GENOME BIOLOGY

Independent surrogate variable analysis to deconvolve confounding factors in large-scale microarray profiling studies

(2011) Andrew E. Teschendorff et al.   BIOINFORMATICS

Significance analysis and statistical dissection of variably methylated regions

(2011) A. E. Jaffe et al.   BIOSTATISTICS

Comprehensive DNA methylation analysis of human peripheral blood leukocytes and lymphoblastoid cell lines

(2011) Hiroko Sugawara et al.   Epigenetics

The influence of aging, environmental exposures and local sequence features on the variation of DNA methylation in blood

(2011) Scott M. Langevin et al.   Epigenetics

Disruption of genomic neighbourhood at the imprinted IGF2-H19 locus in Beckwith–Wiedemann syndrome and Silver–Russell syndrome

(2011) Raffaella Nativio et al.   HUMAN MOLECULAR GENETICS

The effects of EBV transformation on gene expression levels and methylation profiles

(2011) Minal Çalışkan et al.   HUMAN MOLECULAR GENETICS

Sequencing technology does not eliminate biological variability

(2011) Kasper D Hansen et al.   NATURE BIOTECHNOLOGY

Epigenome-wide association studies for common human diseases

(2011) Vardhman K. Rakyan et al.   NATURE REVIEWS GENETICS

Evaluation of the Infinium Methylation 450K technology

(2011) Sarah Dedeurwaerder et al.   Epigenomics

Cell culture-induced aberrant methylation of the imprinted IG DMR in human lymphoblastoid cell lines

(2010) Aabida Saferali et al.   Epigenetics

Epigenetics and gene expression

(2010) E R Gibney et al.   HEREDITY

Quantitative comparison of genome-wide DNA methylation mapping technologies

(2010) Christoph Bock et al.   NATURE BIOTECHNOLOGY

Correcting the record

(2010) Suzanne Harris   NATURE BIOTECHNOLOGY

Tackling the epigenome: challenges and opportunities for collaboration

(2010) John S Satterlee et al.   NATURE BIOTECHNOLOGY

GREAT improves functional interpretation of cis-regulatory regions

(2010) Cory Y McLean et al.   NATURE BIOTECHNOLOGY

The NIH Roadmap Epigenomics Mapping Consortium

(2010) Bradley E Bernstein et al.   NATURE BIOTECHNOLOGY

Tackling the widespread and critical impact of batch effects in high-throughput data

(2010) Jeffrey T. Leek et al.   NATURE REVIEWS GENETICS

Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences

(2010) Jeremy Goecks et al.   GENOME BIOLOGY

The promises and challenges of epigenetic epidemiology

(2009) Karin B. Michels   EXPERIMENTAL GERONTOLOGY

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Deconvolution of Blood Microarray Data Identifies Cellular Activation Patterns in Systemic Lupus Erythematosus

(2009) Alexander R. Abbas et al.   PLoS One

Stochastic epigenetic variation as a driving force of development, evolutionary adaptation, and disease

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

EpiGRAPH: user-friendly software for statistical analysis and prediction of (epi)genomic data

(2009) Christoph Bock et al.   GENOME BIOLOGY

lumi: a pipeline for processing Illumina microarray

(2008) P. Du et al.   BIOINFORMATICS

Genome-wide association studies for complex traits: consensus, uncertainty and challenges

(2008) Mark I. McCarthy et al.   NATURE REVIEWS GENETICS