Human body epigenome maps reveal noncanonical DNA methylation variation

Human DNA methylomes at base resolution show widespread epigenomic differences

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GREAT improves functional interpretation of cis-regulatory regions

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Systematic Localization of Common Disease-Associated Variation in Regulatory DNA

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Super-enhancers in the control of cell identity and disease

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The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores

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X-inactivation profile reveals extensive variability in X-linked gene expression in females

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Global epigenomic reconfiguration during mammalian brain development

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Conserved role of intragenic DNA methylation in regulating alternative promoters

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Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells

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Charting a dynamic DNA methylation landscape of the human genome

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Prostate Cancer Epigenetics: From Basic Mechanisms to Clinical ImplicationsPreprint

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A comparative methylome analysis reveals conservation and divergence of DNA methylation patterns and functions in vertebrates

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Regulation of DNA (de)Methylation Positively Impacts Seed Germination during Seed Development under Heat Stress

Malabarba, J., Windels, D., Xu, W., & Verdier, J. (2021) · Genes · doi:10.3390/genes12030457 · Cited by 55

Modeling complex patterns of differential DNA methylation that associate with gene expression changes

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Genome-wide oxidative bisulfite sequencing identifies sex-specific methylation differences in the human placenta

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Disease prediction by cell-free DNA methylation

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Losing Dnmt3a dependent methylation in inhibitory neurons impairs neural function by a mechanism impacting Rett syndrome

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DNA methylome analysis reveals distinct epigenetic patterns of ascending aortic dissection and bicuspid aortic valve

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Historical Meiotic Crossover Hotspots Fueled Patterns of Evolutionary Divergence in Rice

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AlphaBeta: computational inference of epimutation rates and spectra from high-throughput DNA methylation data in plants

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Epigenetics: A Potential Mechanism Involved in the Pathogenesis of Various Adverse Consequences of Obstructive Sleep Apnea

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pysradb: A Python package to query next-generation sequencing metadata and data from NCBI Sequence Read Archive

Choudhary, S. (2019) · F1000Research · doi:10.12688/f1000research.18676.1 · Cited by 49

Switching between Epigenetic States at Pericentromeric Heterochromatin

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Arabidopsis RNA Polymerase IV generates 21–22 nucleotide small RNAs that can participate in RNA-directed DNA methylation and may regulate genes

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Epigenetic modification in chromatin machinery and its deregulation in pediatric brain tumors: Insight into epigenetic therapies

Maury, E., & Hashizume, R. (2017) · Epigenetics · doi:10.1080/15592294.2016.1278095 · Cited by 50

Allele-specific non-CG DNA methylation marks domains of active chromatin in female mouse brain

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Conditional GWAS of non-CG transposon methylation in Arabidopsis thaliana reveals major polymorphisms in five genes

Sasaki, E., Gunis, J., Reichardt, I., Nizhynska, V., & Nordborg, M. (2022) · PLoS Genetics · doi:10.1371/journal.pgen.1010345 · Cited by 46

Integrative genomic analyses in adipocytes implicate DNA methylation in human obesity and diabetes

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Prenatal immune activation alters the adult neural epigenome but can be partly stabilised by a n-3 polyunsaturated fatty acid diet

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Increased DNA methylation of SLFN12 in CD4+ and CD8+ T cells from multiple sclerosis patients

Rhead, B., Brorson, I. S., Berge, T., Adams, C., Quach, H., Moen, S. M., Berg‐Hansen, P., Celius, E. G., Sangurdekar, D. P., Bronson, P. G., et al. (2018) · PLoS ONE · doi:10.1371/journal.pone.0206511 · Cited by 46

Dynamic phenotypes: illustrating a single-cell odyssey

Wang, W. Y., Zhu, B., & Wang, X. (2017) · Cell Biology and Toxicology · doi:10.1007/s10565-017-9400-2 · Cited by 45

IQSEC2 mutation update and review of the female-specific phenotype spectrum including intellectual disability and epilepsy

Shoubridge, C., Harvey, R. J., & Dudding-Byth, T. (2019) · Human Mutation · doi:10.1002/humu.23670 · Cited by 44

DNA Methylation Landscape Reflects the Spatial Organization of Chromatin in Different Cells

Zhang, L., Xie, W. J., Liu, S., Meng, L., Gu, C., & Gao, Y. Q. (2017) · Biophysical Journal · doi:10.1016/j.bpj.2017.08.019 · Cited by 44

Cell Types in Environmental Epigenetic Studies: Biological and Epidemiological Frameworks

Campbell, K. A., Colacino, J. A., Park, S. K., & Bakulski, K. M. (2020) · Current Environmental Health Reports · doi:10.1007/s40572-020-00287-0 · Cited by 46

Cross-species examination of X-chromosome inactivation highlights domains of escape from silencing

Balaton, B. P., Fornés, O., Wasserman, W. W., & Brown, C. J. (2021) · Epigenetics & Chromatin · doi:10.1186/s13072-021-00386-8 · Cited by 48

Heterochromatin is a quantitative trait associated with spontaneous epiallele formation

Zhang, Y., Jang, H., Xiao, R., Kakoulidou, I., Piecyk, R. S., Johannes, F. M., & Schmitz, R. J. (2021) · Nature Communications · doi:10.1038/s41467-021-27320-6 · Cited by 43

Evolutionary and Experimental Loss of Gene Body Methylation and Its Consequence to Gene Expression

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Multiplex CRISPR-Cas9 editing of DNA methyltransferases in rice uncovers a class of non-CG methylation specific for GC-rich regions

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Dynamic DNA Methylation Regulates Levodopa-Induced Dyskinesia

Figge, D. A., Jaunarajs, K. L. E., & Standaert, D. G. (2016) · Journal of Neuroscience · doi:10.1523/jneurosci.0683-16.2016 · Cited by 42

MethylScore, a pipeline for accurate and context-aware identification of differentially methylated regions from population-scale plant whole-genome bisulfite sequencing data

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The plant response to high CO2 levels is heritable and orchestrated by DNA methylation

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LBH Gene Transcription Regulation by the Interplay of an Enhancer Risk Allele and DNA Methylation in Rheumatoid Arthritis

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The HASTER lncRNA promoter is a cis-acting transcriptional stabilizer of HNF1A

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Epigenetic Mechanisms of the Aging Human Retina

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DNA Methylation Atlas of the Mouse Brain at Single-Cell Resolution

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Haplotype‐resolved genome assembly of Populus tremula × P. alba reveals aspen‐specific megabase satellite DNA

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Down-expression of P2RX2, KCNQ5, ERBB3 and SOCS3 through DNA hypermethylation in elderly women with presbycusis

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MethGET: web-based bioinformatics software for correlating genome-wide DNA methylation and gene expression

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Identification of cell type-specific methylation signals in bulk whole genome bisulfite sequencing data

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Novel regional age-associated DNA methylation changes within human common disease-associated loci

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Inflammatory Bowel Disease: Complexity and Variability Need Integration

Fiocchi, C. (2018) · Frontiers in Medicine · doi:10.3389/fmed.2018.00075 · Cited by 39

Allele-specific DNA methylation is increased in cancers and its dense mapping in normal plus neoplastic cells increases the yield of disease-associated regulatory SNPs

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Prostate cancer epigenetics and its clinical implications

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Analysis of DNA modifications in aging research

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Genome-Wide DNA Methylation and RNA Analysis Reveal Potential Mechanism of Resistance to Streptococcus agalactiae in GIFT Strain of Nile Tilapia ( Oreochromis niloticus)

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Interplay between Metabolism, Nutrition and Epigenetics in Shaping Brain DNA Methylation, Neural Function and Behavior

Pizzorusso, T., & Tognini, P. (2020) · Genes · doi:10.3390/genes11070742 · Cited by 40

Dnmt3a knockout in excitatory neurons impairs postnatal synapse maturation and increases the repressive histone modification H3K27me3

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5-hydroxymethylcytosine marks regions with reduced mutation frequency in human DNA

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Maternal dominance contributes to subgenome differentiation in allopolyploid fishes

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Histone H1 Limits DNA Methylation in Neurospora crassa

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Population Epigenomics: Advancing Understanding of Phenotypic Plasticity, Acclimation, Adaptation and Diseases

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DNMT1 mutant ants develop normally but have disrupted oogenesis

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Metabolome plasticity in 241Arabidopsis thalianaaccessions reveals evolutionary cold adaptation processes

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Transcriptional Enhancers: Bridging the Genome and PhenomePreprint

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Repression of CHROMOMETHYLASE 3 prevents epigenetic collateral damage in Arabidopsis

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Neurobiological basis for pain vulnerability: why me?

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Mammalian DNA methylome dynamics: mechanisms, functions and new frontiers

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Epigenomic insights into common human disease pathology

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Riboflavin supplementation alters global and gene-specific DNA methylation in adults with the MTHFR 677 TT genotype

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Analyzing whole genome bisulfite sequencing data from highly divergent genotypes

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Nutritional Epigenomics and Age-Related Disease

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Parallel Development of Chromatin Patterns, Neuron Morphology, and Connections: Potential for Disruption in Autism

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Evolutionary conservation of embryonic DNA methylome remodelling in distantly related teleost species

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Systematic review on the DNA methylation role in endometriosis: current evidence and perspectives

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Uncovering the Role of the Methylome in Dementia and Neurodegeneration

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Genome-wide DNA Methylation Signatures Are Determined by DNMT3A/B Sequence Preferences

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MethylStar: A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing data

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A systems genomics approach to uncover patient-specific pathogenic pathways and proteins in ulcerative colitis

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Epigenetic remodeling in preimplantation embryos: cows are not big mice

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Rapid and dynamic evolution of a giant Y chromosome in Silene latifolia

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Tet-mediated DNA demethylation regulates specification of hematopoietic stem and progenitor cells during mammalian embryogenesis

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Droplet-based bisulfite sequencing for high-throughput profiling of single-cell DNA methylomes

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Analyzing single-cell bisulfite sequencing data with MethSCAn

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Role of epigenetic mechanisms in the pathogenesis of chronic respiratory diseases and response to inhaled exposures: From basic concepts to clinical applications

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Decoding the non‐coding genome: elucidating genetic risk outside the coding genome

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DNA methylation dynamics during embryonic development and postnatal maturation of the mouse auditory sensory epithelium

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Flanking sequence preference modulates de novo DNA methylation in the mouse genome

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Symbiont shuffling induces differential DNA methylation responses to thermal stress in the coral Montastraea cavernosa

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DNA demethylation and hypermethylation are both required for late nodule development in Medicago

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