DNA methylation at the crossroads of gene and environment interactions

ERVcaller: Identifying polymorphic endogenous retrovirus and other transposable element insertions using whole-genome sequencing data

(2019) Xun Chen et al.   BIOINFORMATICS

Early life diet conditions the molecular response to post-weaning protein restriction in the mouse

(2018) Amy F. Danson et al.   BMC BIOLOGY

Cell-type-specific disturbance of DNA methylation pattern: a chance to get more benefit from and to minimize cohorts for epigenome-wide association studies

(2018) Mario Bauer   INTERNATIONAL JOURNAL OF EPIDEMIOLOGY

Maternal overnutrition programs epigenetic changes in the regulatory regions of hypothalamic Pomc in the offspring of rats

(2018) Thanuja Gali Ramamoorthy et al.   INTERNATIONAL JOURNAL OF OBESITY

Nanopore sequencing and assembly of a human genome with ultra-long reads

(2018) Miten Jain et al.   NATURE BIOTECHNOLOGY

Piercing the dark matter: bioinformatics of long-range sequencing and mapping

(2018) Fritz J. Sedlazeck et al.   NATURE REVIEWS GENETICS

Variation in human chromosome 21 ribosomal RNA genes characterized by TAR cloning and long-read sequencing

(2018) Jung-Hyun Kim et al.   NUCLEIC ACIDS RESEARCH

Variant ribosomal RNA alleles are conserved and exhibit tissue-specific expression

(2018) Matthew M. Parks et al.   Science Advances

Establishment of environmentally sensitive DNA methylation states in the very early human embryo

(2018) Noah J. Kessler et al.   Science Advances

Identification, Characterization, and Heritability of Murine Metastable Epialleles: Implications for Non-genetic Inheritance

(2018) Anastasiya Kazachenka et al.   CELL

Genome-wide base-resolution mapping of DNA methylation in single cells using single-cell bisulfite sequencing (scBS-seq)

(2017) Stephen J Clark et al.   Nature Protocols

Single-cell epigenomics: Recording the past and predicting the future

(2017) Gavin Kelsey et al.   SCIENCE

Revisiting the Relationship between Transposable Elements and the Eukaryotic Stress Response

(2017) Vivien Horváth et al.   TRENDS IN GENETICS

Cell-type deconvolution in epigenome-wide association studies: a review and recommendations

(2017) Andrew E Teschendorff et al.   Epigenomics

Is cellular heterogeneity merely a confounder to be removed from epigenome-wide association studies?

(2017) Joanna D Holbrook et al.   Epigenomics

Visualizing Changes in Cdkn1c Expression Links Early-Life Adversity to Imprint Mis-regulation in Adults

(2017) Mathew Van de Pette et al.   Cell Reports

Reference-free deconvolution of DNA methylation data and mediation by cell composition effects

(2016) E. Andres Houseman et al.   BMC BIOINFORMATICS

Inheritable Silencing of Endogenous Genes by Hit-and-Run Targeted Epigenetic Editing

(2016) Angelo Amabile et al.   CELL

Genetic Drivers of Epigenetic and Transcriptional Variation in Human Immune Cells

(2016) Lu Chen et al.   CELL

Epigenetic programming of adipose-derived stem cells in low birthweight individuals

(2016) Christa Broholm et al.   DIABETOLOGIA

Transient transcription in the early embryo sets an epigenetic state that programs postnatal growth

(2016) Maxim V C Greenberg et al.   NATURE GENETICS

Parallel single-cell sequencing links transcriptional and epigenetic heterogeneity

(2016) Christof Angermueller et al.   NATURE METHODS

Regulatory activities of transposable elements: from conflicts to benefits

(2016) Edward B. Chuong et al.   NATURE REVIEWS GENETICS

Early-life nutrition modulates the epigenetic state of specific rDNA genetic variants in mice

(2016) Michelle L. Holland et al.   SCIENCE

Human body epigenome maps reveal noncanonical DNA methylation variation

(2015) Matthew D. Schultz et al.   NATURE

Regulation of ribosomal DNA amplification by the TOR pathway

(2015) Carmen V. Jack et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Concerted copy number variation balances ribosomal DNA dosage in human and mouse genomes

(2015) John G. Gibbons et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genetic and epigenetic variation among inbred mouse littermates: identification of inter-individual differentially methylated regions

(2015) Harald Oey et al.   Epigenetics & Chromatin

Long-range epigenetic regulation is conferred by genetic variation located at thousands of independent loci

(2015) Mathieu Lemire et al.   Nature Communications

DNA methylation changes of whole blood cells in response to active smoking exposure in adults: a systematic review of DNA methylation studies

(2015) Xu Gao et al.   Clinical Epigenetics

Independent genomewide screens identify the tumor suppressor VTRNA2-1 as a human epiallele responsive to periconceptional environment

(2015) Matt J Silver et al.   GENOME BIOLOGY

Epigenetics as the mediator of fetal programming of adult onset disease: what is the evidence?

(2014) Richard Saffery et al.   ACTA OBSTETRICIA ET GYNECOLOGICA SCANDINAVICA

Overweight and CpG methylation of the Pomc promoter in offspring of high-fat-diet-fed dams are not “reprogrammed” by regular chow diet in rats

(2014) Asaf Marco et al.   FASEB JOURNAL

A High-Definition View of Functional Genetic Variation from Natural Yeast Genomes

(2014) Anders Bergström et al.   MOLECULAR BIOLOGY AND EVOLUTION

Maternal nutrition at conception modulates DNA methylation of human metastable epialleles

(2014) Paula Dominguez-Salas et al.   Nature Communications

Developmental programming: Variations in early growth and adult disease

(2013) Linda A Gallo et al.   CLINICAL AND EXPERIMENTAL PHARMACOLOGY AND PHYSIOLOGY

Epigenetic memory at embryonic enhancers identified in DNA methylation maps from adult mouse tissues

(2013) Gary C Hon et al.   NATURE GENETICS

DNA methylation arrays as surrogate measures of cell mixture distribution

(2012) Eugene Houseman et al.   BMC BIOINFORMATICS

Maternal fat intake in rats alters 20:4n-6 and 22:6n-3 status and the epigenetic regulation of Fads2 in offspring liver

(2012) Samuel P. Hoile et al.   JOURNAL OF NUTRITIONAL BIOCHEMISTRY

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

mTOR binds to the promoters of RNA polymerase I- and III-transcribed genes

(2011) Chi Kwan Tsang et al.   CELL CYCLE

Preparation of reduced representation bisulfite sequencing libraries for genome-scale DNA methylation profiling

(2011) Hongcang Gu et al.   Nature Protocols

Repetitive DNA and next-generation sequencing: computational challenges and solutions

(2011) Todd J. Treangen et al.   NATURE REVIEWS GENETICS

Hunger Artists: Yeast Adapted to Carbon Limitation Show Trade-Offs under Carbon Sufficiency

(2011) Jared W. Wenger et al.   PLoS Genetics

Maternal High-Fat Diet Alters Methylation and Gene Expression of Dopamine and Opioid-Related Genes

(2010) Zivjena Vucetic et al.   ENDOCRINOLOGY

The NIH Roadmap Epigenomics Mapping Consortium

(2010) Bradley E Bernstein et al.   NATURE BIOTECHNOLOGY

Early life protein restriction alters dopamine circuitry

(2010) Z. Vucetic et al.   NEUROSCIENCE

Season of Conception in Rural Gambia Affects DNA Methylation at Putative Human Metastable Epialleles

(2010) Robert A. Waterland et al.   PLoS Genetics

DNA methylation differences after exposure to prenatal famine are common and timing- and sex-specific

(2009) Elmar W. Tobi et al.   HUMAN MOLECULAR GENETICS

Human DNA methylomes at base resolution show widespread epigenomic differences

(2009) Ryan Lister et al.   NATURE

Feeding pregnant rats a protein-restricted diet persistently alters the methylation of specific cytosines in the hepatic PPARα promoter of the offspring

(2008) Karen A. Lillycrop et al.   BRITISH JOURNAL OF NUTRITION

Epigenetic Control of rDNA Loci in Response to Intracellular Energy Status

(2008) Akiko Murayama et al.   CELL

Persistent epigenetic differences associated with prenatal exposure to famine in humans

(2008) B. T. Heijmans et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA