4.8 Article

Genome-wide quantification of the effects of DNA methylation on human gene regulation

Related references

Note: Only part of the references are listed.
Article Biochemical Research Methods

Resolving systematic errors in widely used enhancer activity assays in human cells

Felix Muerdter et al.

NATURE METHODS (2018)

Article Biochemistry & Molecular Biology

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

Aziz Khan et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Genetics & Heredity

A screening system to identify transcription factors that induce binding site-directed DNA demethylation

Takahiro Suzuki et al.

EPIGENETICS & CHROMATIN (2017)

Article Multidisciplinary Sciences

Measuring quantitative effects of methylation on transcription factor-DNA binding affinity

Zheng Zuo et al.

SCIENCE ADVANCES (2017)

Article Biochemistry & Molecular Biology

PANTHER version 10: expanded protein families and functions, and analysis tools

Huaiyu Mi et al.

NUCLEIC ACIDS RESEARCH (2016)

Article Biochemistry & Molecular Biology

Direct GR Binding Sites Potentiate Clusters of TF Binding across the Human Genome

Christopher M. Vockley et al.

Article Biochemistry & Molecular Biology

Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape

Ronan C. O'Malley et al.

Article Biochemistry & Molecular Biology

Editing DNA Methylation in the Mammalian Genome

X. Shawn Liu et al.

Article Biochemistry & Molecular Biology

Multiplex enhancer-reporter assays uncover unsophisticated TP53 enhancer logic

Annelien Verfaillie et al.

GENOME RESEARCH (2016)

Article Biochemistry & Molecular Biology

Resource base influences genome-wide DNA methylation levels in wild baboons (Papio cynocephalus)

Amanda J. Lea et al.

MOLECULAR ECOLOGY (2016)

Review Genetics & Heredity

Transcription factors as readers and effectors of DNA methylation

Heng Zhu et al.

NATURE REVIEWS GENETICS (2016)

Article Biochemistry & Molecular Biology

Differential sensitivity to methylated DNA by ETS-family transcription factors is intrinsically encoded in their DNA-binding domains

Dominique C. Stephens et al.

NUCLEIC ACIDS RESEARCH (2016)

Article Biochemistry & Molecular Biology

Repurposing the CRISPR-Cas9 system for targeted DNA methylation

Aleksandar Vojta et al.

NUCLEIC ACIDS RESEARCH (2016)

Article Biochemistry & Molecular Biology

Bacterial infection remodels the DNA methylation landscape of human dendritic cells

Alain Pacis et al.

GENOME RESEARCH (2015)

Article Biochemistry & Molecular Biology

Massively parallel quantification of the regulatory effects of noncoding genetic variation in a human cohort

Christopher M. Vockley et al.

GENOME RESEARCH (2015)

Article Medicine, Research & Experimental

TALE-mediated epigenetic suppression of CDKN2A increases replication in human

Diana L. Bernstein et al.

JOURNAL OF CLINICAL INVESTIGATION (2015)

Article Multidisciplinary Sciences

Integrative analysis of 111 reference human epigenomes

Anshul Kundaje et al.

NATURE (2015)

Review Multidisciplinary Sciences

Function and information content of DNA methylation

Dirk Schuebeler

NATURE (2015)

Article Multidisciplinary Sciences

High-throughput and quantitative assessment of enhancer activity in mammals by CapStarr-seq

Laurent Vanhille et al.

NATURE COMMUNICATIONS (2015)

Review Genetics & Heredity

DNA Methylation: Insights into Human Evolution

Irene Hernando-Herraez et al.

PLOS GENETICS (2015)

Article Biotechnology & Applied Microbiology

DNA methylation age of blood predicts all-cause mortality in later life

Riccardo E. Marioni et al.

GENOME BIOLOGY (2015)

Article Multidisciplinary Sciences

Enhancer-core-promoter specificity separates developmental and housekeeping gene regulation

Muhammad A. Zabidi et al.

NATURE (2015)

Article Biochemistry & Molecular Biology

The UCSC Genome Browser database: 2014 update

Donna Karolchik et al.

NUCLEIC ACIDS RESEARCH (2014)

Article Multidisciplinary Sciences

Age-related variations in the methylome associated with gene expression in human monocytes and T cells

Lindsay M. Reynolds et al.

NATURE COMMUNICATIONS (2014)

Article Multidisciplinary Sciences

DNA methylation signatures link prenatal famine exposure to growth and metabolism

Elmar W. Tobi et al.

NATURE COMMUNICATIONS (2014)

Article Multidisciplinary Sciences

Maternal nutrition at conception modulates DNA methylation of human metastable epialleles

Paula Dominguez-Salas et al.

NATURE COMMUNICATIONS (2014)

Article Biotechnology & Applied Microbiology

voom: precision weights unlock linear model analysis tools for RNA-seq read counts

Charity W. Law et al.

GENOME BIOLOGY (2014)

Article Biotechnology & Applied Microbiology

Targeted DNA demethylation and activation of endogenous genes using programmable TALE-TET1 fusion proteins

Morgan L. Maeder et al.

NATURE BIOTECHNOLOGY (2013)

Review Genetics & Heredity

DNA methylation: roles in mammalian development

Zachary D. Smith et al.

NATURE REVIEWS GENETICS (2013)

Article Multidisciplinary Sciences

Genome-Wide Quantitative Enhancer Activity Maps Identified by STARR-seq

Cosmas D. Arnold et al.

SCIENCE (2013)

Article Genetics & Heredity

Dynamics of DNA Methylation in Recent Human and Great Ape Evolution

Irene Hernando-Herraez et al.

PLOS GENETICS (2013)

Article Biotechnology & Applied Microbiology

DNA methylation of distal regulatory sites characterizes dysregulation of cancer genes

Dvir Aran et al.

GENOME BIOLOGY (2013)

Article Cell Biology

Acute Exercise Remodels Promoter Methylation in Human Skeletal Muscle

Romain Barres et al.

CELL METABOLISM (2012)

Article Biochemistry & Molecular Biology

Epigenetic reprogramming of cancer cells via targeted DNA methylation

Ashley G. Rivenbark et al.

EPIGENETICS (2012)

Article Biochemistry & Molecular Biology

Genome-scale analysis of aberrant DNA methylation in colorectal cancer

Toshinori Hinoue et al.

GENOME RESEARCH (2012)

Article Multidisciplinary Sciences

An integrated encyclopedia of DNA elements in the human genome

Ian Dunham et al.

NATURE (2012)

Article Biotechnology & Applied Microbiology

Systematic dissection and optimization of inducible enhancers in human cells using a massively parallel reporter assay

Alexandre Melnikov et al.

NATURE BIOTECHNOLOGY (2012)

Article Biotechnology & Applied Microbiology

Massively parallel functional dissection of mammalian enhancers in vivo

Rupali P. Patwardhan et al.

NATURE BIOTECHNOLOGY (2012)

Review Genetics & Heredity

DNA methylation profiling in the clinic: applications and challenges

Holger Heyn et al.

NATURE REVIEWS GENETICS (2012)

Review Genetics & Heredity

Epigenetics and the environment: emerging patterns and implications

Robert Feil et al.

NATURE REVIEWS GENETICS (2012)

Article Multidisciplinary Sciences

Factors underlying variable DNA methylation in a human community cohort

Lucia L. Lam et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)

Article Biotechnology & Applied Microbiology

The aging epigenome: DNA methylation from the cradle to the grave

Marc Winnefeld et al.

GENOME BIOLOGY (2012)

Article Biotechnology & Applied Microbiology

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

Patrick Boyle et al.

GENOME BIOLOGY (2012)

Article Multidisciplinary Sciences

Spontaneous epigenetic variation in the Arabidopsis thaliana methylome

Claude Becker et al.

NATURE (2011)

Article Genetics & Heredity

Increased methylation variation in epigenetic domains across cancer types

Kasper Daniel Hansen et al.

NATURE GENETICS (2011)

Review Psychology

Epigenetics and the Environmental Regulation of the Genome and Its Function

Tie-Yuan Zhang et al.

ANNUAL REVIEW OF PSYCHOLOGY (2010)

Article Biochemical Research Methods

BEDTools: a flexible suite of utilities for comparing genomic features

Aaron R. Quinlan et al.

BIOINFORMATICS (2010)

Article Biochemical Research Methods

Fast and accurate short read alignment with Burrows-Wheeler transform

Heng Li et al.

BIOINFORMATICS (2009)

Article Biochemical Research Methods

BSMAP: whole genome bisulfite sequence MAPping program

Yuanxin Li et al.

BMC BIOINFORMATICS (2009)

Article Multidisciplinary Sciences

Genome-scale DNA methylation maps of pluripotent and differentiated cells

Alexander Meissner et al.

NATURE (2008)

Review Genetics & Heredity

Environmental epigenomics and disease susceptibility

Randy L. Jirtle et al.

NATURE REVIEWS GENETICS (2007)

Article Biochemistry & Molecular Biology

Functional Analysis of Promoter CpG Methylation Using a CpG-Free Luciferase Reporter Vector

Maja Klug et al.

EPIGENETICS (2006)

Article Biochemistry & Molecular Biology

Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

A Siepel et al.

GENOME RESEARCH (2005)