4.4 Article

Predicting genome-wide DNA methylation using methylation marks, genomic position, and DNA regulatory elements

Related references

Note: Only part of the references are listed.
News Item Biochemistry & Molecular Biology

ENZYME REGULATION A thiol switch opens the gate

Haike Antelmann

NATURE CHEMICAL BIOLOGY (2015)

Article Biochemistry & Molecular Biology

Predicting DNA methylation level across human tissues

Baoshan Ma et al.

NUCLEIC ACIDS RESEARCH (2014)

Article Biotechnology & Applied Microbiology

Accounting for cellular heterogeneity is critical in epigenome-wide association studies

Andrew E. Jaffe et al.

GENOME BIOLOGY (2014)

Article Biotechnology & Applied Microbiology

DNA methylome profiling of human tissues identifies global and tissue-specific methylation patterns

Kaie Lokk et al.

GENOME BIOLOGY (2014)

Article Biochemistry & Molecular Biology

Early de novo DNA methylation and prolonged demethylation in the muscle lineage

Koji Tsumagari et al.

EPIGENETICS (2013)

Article Multidisciplinary Sciences

Charting a dynamic DNA methylation landscape of the human genome

Michael J. Ziller et al.

NATURE (2013)

Article Multidisciplinary Sciences

A statin-dependent QTL for GATM expression is associated with statin-induced myopathy

Lara M. Mangravite et al.

NATURE (2013)

Article Biochemistry & Molecular Biology

The UCSC Genome Browser database: extensions and updates 2013

Laurence R. Meyer et al.

NUCLEIC ACIDS RESEARCH (2013)

Review Biochemistry & Molecular Biology

Programming of DNA Methylation Patterns

Howard Cedar et al.

ANNUAL REVIEW OF BIOCHEMISTRY, VOL 81 (2012)

Article Biology

Prediction of methylation CpGs and their methylation degrees in human DNA sequences

Xuan Zhou et al.

COMPUTERS IN BIOLOGY AND MEDICINE (2012)

Article Biochemistry & Molecular Biology

A DNA methylation fingerprint of 1628 human samples

Agustin F. Fernandez et al.

GENOME RESEARCH (2012)

Article Endocrinology & Metabolism

DNA Methylation Profiling Identifies Global Methylation Differences and Markers of Adrenocortical Tumors

Nesrin S. Rechache et al.

JOURNAL OF CLINICAL ENDOCRINOLOGY & METABOLISM (2012)

Article Multidisciplinary Sciences

DNase I sensitivity QTLs are a major determinant of human expression variation

Jacob F. Degner et al.

NATURE (2012)

Letter Biochemical Research Methods

ChromHMM: automating chromatin-state discovery and characterization

Jason Ernst et al.

NATURE METHODS (2012)

Review Genetics & Heredity

Functions of DNA methylation: islands, start sites, gene bodies and beyond

Peter A. Jones

NATURE REVIEWS GENETICS (2012)

Article Biotechnology & Applied Microbiology

Dissecting the regulatory architecture of gene expression QTLs

Daniel J. Gaffney et al.

GENOME BIOLOGY (2012)

Article Genetics & Heredity

A Genome-wide Comparison of the Functional Properties of Rare and Common Genetic Variants in Humans

Qianqian Zhu et al.

AMERICAN JOURNAL OF HUMAN GENETICS (2011)

Article Biochemistry & Molecular Biology

Validation of a DNA methylation microarray for 450,000 CpG sites in the human genome

Juan Sandoval et al.

EPIGENETICS (2011)

Review Cell Biology

CpG islands and the regulation of transcription

Aimee M. Deaton et al.

GENES & DEVELOPMENT (2011)

Article Biotechnology & Applied Microbiology

High density DNA methylation array with single CpG site resolution

Marina Bibikova et al.

GENOMICS (2011)

Article Genetics & Heredity

Identification of genetic elements that autonomously determine DNA methylation states

Florian Lienert et al.

NATURE GENETICS (2011)

Article Biotechnology & Applied Microbiology

DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines

Jordana T. Bell et al.

GENOME BIOLOGY (2011)

Article Genetics & Heredity

Genetic Control of Individual Differences in Gene-Specific Methylation in Human Brain

Dandan Zhang et al.

AMERICAN JOURNAL OF HUMAN GENETICS (2010)

Article Biotechnology & Applied Microbiology

Genome-wide conserved consensus transcription factor binding motifs are hyper-methylated

Mun-Kit Choy et al.

BMC GENOMICS (2010)

Article Biochemistry & Molecular Biology

Genetic Heterogeneity in Human Disease

Jon McClellan et al.

Article Cell & Tissue Engineering

Distinct Epigenomic Landscapes of Pluripotent and Lineage-Committed Human Cells

R. David Hawkins et al.

CELL STEM CELL (2010)

Article Cell & Tissue Engineering

Epigenetic Mechanisms that Regulate Cell Identity

Maria J. Barrero et al.

CELL STEM CELL (2010)

Article Biochemistry & Molecular Biology

Dynamic changes in the human methylome during differentiation

Louise Laurent et al.

GENOME RESEARCH (2010)

Article Multidisciplinary Sciences

Conserved role of intragenic DNA methylation in regulating alternative promoters

Alika K. Maunakea et al.

NATURE (2010)

Article Multidisciplinary Sciences

A map of human genome variation from population-scale sequencing

David Altshuler et al.

NATURE (2010)

Review Genetics & Heredity

Establishing, maintaining and modifying DNA methylation patterns in plants and animals

Julie A. Law et al.

NATURE REVIEWS GENETICS (2010)

Review Genetics & Heredity

Principles and challenges of genome-wide DNA methylation analysis

Peter W. Laird

NATURE REVIEWS GENETICS (2010)

Review Biochemistry & Molecular Biology

RUNX3 is multifunctional in carcinogenesis of multiple solid tumors

L. S. H. Chuang et al.

ONCOGENE (2010)

Article Biochemical Research Methods

Identifying a High Fraction of the Human Genome to be under Selective Constraint Using GERP plus

Eugene V. Davydov et al.

PLOS COMPUTATIONAL BIOLOGY (2010)

Article Genetics & Heredity

VEZF1 Elements Mediate Protection from DNA Methylation

Jacqueline Dickson et al.

PLOS GENETICS (2010)

Article Biochemical Research Methods

Profile analysis and prediction of tissue-specific CpG island methylation classes

Christopher Previti et al.

BMC BIOINFORMATICS (2009)

Review Computer Science, Artificial Intelligence

Learning from Imbalanced Data

Haibo He et al.

IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING (2009)

Article Multidisciplinary Sciences

Human DNA methylomes at base resolution show widespread epigenomic differences

Ryan Lister et al.

NATURE (2009)

Article Multidisciplinary Sciences

An Epigenetic Signature in Peripheral Blood Predicts Active Ovarian Cancer

Andrew E. Teschendorff et al.

PLOS ONE (2009)

Article Biochemistry & Molecular Biology

Histone methylation marks play important roles in predicting the methylation status of CpG islands

Shicai Fan et al.

BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS (2008)

Article Genetics & Heredity

Genome-wide profiling reveals a class of normally methylated CpG island promoters

Lanlan Shen et al.

PLOS GENETICS (2007)

Article Anatomy & Morphology

Epigenetics in development

Julie C. Kiefer

DEVELOPMENTAL DYNAMICS (2007)

Article Oncology

Loss of heterozygosity and microsatellite instability on chromosome arm 10q in neuroblastoma

Paula Lazcoz et al.

CANCER GENETICS AND CYTOGENETICS (2007)

Article Genetics & Heredity

DNA methylation profiling of human chromosomes 6, 20 and 22

Florian Eckhardt et al.

NATURE GENETICS (2006)

Article Biochemical Research Methods

Predicting methylation status of CpG islands in the human brain

Fang Fang et al.

BIOINFORMATICS (2006)

Article Multidisciplinary Sciences

Computational prediction of methylation status in human genomic sequences

Rajdeep Das et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)

Article Cell Biology

Myc-binding-site recognition in the human genome is determined by chromatin context

Ernesto Guccione et al.

NATURE CELL BIOLOGY (2006)

Correction Biochemistry & Molecular Biology

A map of recent positive selection in the human genome (vol 4, pg 154, 2006)

BF Voight et al.

PLOS BIOLOGY (2006)

Article Biochemistry & Molecular Biology

A map of recent positive selection in the human genome

BF Voight et al.

PLOS BIOLOGY (2006)

Review Multidisciplinary Sciences

A haplotype map of the human genome

D Altshuler et al.

NATURE (2005)

Article Biochemical Research Methods

ROCR: visualizing classifier performance in R

T Sing et al.

BIOINFORMATICS (2005)

Article Biochemistry & Molecular Biology

Prediction of methylated CpGs in DNA sequences using a support vector machine

M Bhasin et al.

FEBS LETTERS (2005)

Article Biochemistry & Molecular Biology

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

A Siepel et al.

GENOME RESEARCH (2005)

Review Cell Biology

DNA methylation 40 years later: Its role in human health and disease

MI Scarano et al.

JOURNAL OF CELLULAR PHYSIOLOGY (2005)

Review Oncology

DNA methylation and cancer

PM Das et al.

JOURNAL OF CLINICAL ONCOLOGY (2004)

Article Biochemistry & Molecular Biology

Causal relationship between the loss of RUNX3 expression and gastric cancer

QL Li et al.

Article Biochemistry & Molecular Biology

Independent repression of a GC-rich housekeeping gene by Sp1 and MAZ involves the same cis-elements

J Song et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2001)