Published in Nat Rev Genet on March 01, 2010
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Comparison of Beta-value and M-value methods for quantifying methylation levels by microarray analysis. BMC Bioinformatics (2010) 7.78
Epigenetic modifications and human disease. Nat Biotechnol (2010) 7.29
DNA methylation: roles in mammalian development. Nat Rev Genet (2013) 6.65
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Computational analysis of genome-wide DNA methylation during the differentiation of human embryonic stem cells along the endodermal lineage. Genome Res (2010) 2.61
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A statistical framework for Illumina DNA methylation arrays. Bioinformatics (2010) 1.92
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Transcriptionally repressed genes become aberrantly methylated and distinguish tumors of different lineages in breast cancer. Proc Natl Acad Sci U S A (2011) 1.82
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Blood-based profiles of DNA methylation predict the underlying distribution of cell types: a validation analysis. Epigenetics (2013) 1.79
Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNA. Genome Res (2012) 1.78
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DNA methylation and cellular reprogramming. Trends Cell Biol (2010) 1.77
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NGS technologies for analyzing germplasm diversity in genebanks. Brief Funct Genomics (2012) 1.76
High-resolution DNA methylome analysis of primordial germ cells identifies gender-specific reprogramming in mice. Genome Res (2013) 1.75
Methylome analysis using MeDIP-seq with low DNA concentrations. Nat Protoc (2012) 1.70
Real-time analysis and selection of methylated DNA by fluorescence-activated single molecule sorting in a nanofluidic channel. Proc Natl Acad Sci U S A (2012) 1.70
Epigenetic variability in cells of normal cytology is associated with the risk of future morphological transformation. Genome Med (2012) 1.65
Deep sequencing reveals distinct patterns of DNA methylation in prostate cancer. Genome Res (2011) 1.63
Comparative methylome analysis of benign and malignant peripheral nerve sheath tumors. Genome Res (2011) 1.60
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Quantitative cross-validation and content analysis of the 450k DNA methylation array from Illumina, Inc. BMC Res Notes (2012) 1.59
Mouse oocyte methylomes at base resolution reveal genome-wide accumulation of non-CpG methylation and role of DNA methyltransferases. PLoS Genet (2013) 1.57
Nucleosomes containing methylated DNA stabilize DNA methyltransferases 3A/3B and ensure faithful epigenetic inheritance. PLoS Genet (2011) 1.56
Epigenetic-aging-signature to determine age in different tissues. Aging (Albany NY) (2011) 1.55
MOABS: model based analysis of bisulfite sequencing data. Genome Biol (2014) 1.53
Mutations in regulators of the epigenome and their connections to global chromatin patterns in cancer. Nat Rev Genet (2013) 1.53
Cytosine methylation changes in enhancer regions of core pro-fibrotic genes characterize kidney fibrosis development. Genome Biol (2013) 1.52
The epigenetics of autoimmunity. Cell Mol Immunol (2011) 1.47
SAMMate: a GUI tool for processing short read alignments in SAM/BAM format. Source Code Biol Med (2011) 1.47
Epigenome mapping in normal and disease States. Circ Res (2010) 1.47
Environmental epigenetics: prospects for studying epigenetic mediation of exposure-response relationships. Hum Genet (2012) 1.47
Epigenome-wide association study (EWAS) of BMI, BMI change and waist circumference in African American adults identifies multiple replicated loci. Hum Mol Genet (2015) 1.45
Repitools: an R package for the analysis of enrichment-based epigenomic data. Bioinformatics (2010) 1.45
A framework for the study of multiple realizations: the importance of levels of analysis. Front Physiol (2011) 1.45
Identification of driver and passenger DNA methylation in cancer by epigenomic analysis. Adv Genet (2010) 1.44
High-throughput analysis of the mutagenic and cytotoxic properties of DNA lesions by next-generation sequencing. Nucleic Acids Res (2011) 1.43
RRBSMAP: a fast, accurate and user-friendly alignment tool for reduced representation bisulfite sequencing. Bioinformatics (2011) 1.42
Methylome evolution in plants. Genome Biol (2016) 1.39
The DNA methylome. FEBS Lett (2010) 1.38
DeepCpG: accurate prediction of single-cell DNA methylation states using deep learning. Genome Biol (2017) 1.37
QDMR: a quantitative method for identification of differentially methylated regions by entropy. Nucleic Acids Res (2011) 1.37
Allele-specific methylation in the human genome: implications for genetic studies of complex disease. Epigenetics (2010) 1.37
Protocol matters: which methylome are you actually studying? Epigenomics (2010) 1.37
PolyCat: a resource for genome categorization of sequencing reads from allopolyploid organisms. G3 (Bethesda) (2013) 1.34
Functional DNA methylation differences between tissues, cell types, and across individuals discovered using the M&M algorithm. Genome Res (2013) 1.33
Review of processing and analysis methods for DNA methylation array data. Br J Cancer (2013) 1.33
On the analysis of the illumina 450k array data: probes ambiguously mapped to the human genome. Front Genet (2012) 1.33
Epigenetic reprogramming of host genes in viral and microbial pathogenesis. Trends Microbiol (2010) 1.32
Estimating absolute methylation levels at single-CpG resolution from methylation enrichment and restriction enzyme sequencing methods. Genome Res (2013) 1.31
Effects of cytosine methylation on transcription factor binding sites. BMC Genomics (2014) 1.31
Statistical approaches for the analysis of DNA methylation microarray data. Hum Genet (2011) 1.31
Gene-environment interactions in chronic inflammatory disease. Nat Immunol (2011) 1.30
High resolution methylome map of rat indicates role of intragenic DNA methylation in identification of coding region. PLoS One (2012) 1.29
A genome-wide DNA methylation study in colorectal carcinoma. BMC Med Genomics (2011) 1.27
NGSmethDB: a database for next-generation sequencing single-cytosine-resolution DNA methylation data. Nucleic Acids Res (2010) 1.27
Long interspersed nuclear element-1 hypomethylation in cancer: biology and clinical applications. Clin Epigenetics (2011) 1.26
A comparison of feature selection and classification methods in DNA methylation studies using the Illumina Infinium platform. BMC Bioinformatics (2012) 1.26
Variable DNA methylation is associated with chronic obstructive pulmonary disease and lung function. Am J Respir Crit Care Med (2011) 1.26
A reference methylome database and analysis pipeline to facilitate integrative and comparative epigenomics. PLoS One (2013) 1.26
Human genetics of tuberculosis: a long and winding road. Philos Trans R Soc Lond B Biol Sci (2014) 1.25
Identification of tumor suppressors and oncogenes from genomic and epigenetic features in ovarian cancer. PLoS One (2011) 1.25
Epigenetic control of gene expression in the lung. Am J Respir Crit Care Med (2011) 1.24
MethLAB: a graphical user interface package for the analysis of array-based DNA methylation data. Epigenetics (2012) 1.24
Epigenetics of host-pathogen interactions: the road ahead and the road behind. PLoS Pathog (2012) 1.24
A methylome-wide study of aging using massively parallel sequencing of the methyl-CpG-enriched genomic fraction from blood in over 700 subjects. Hum Mol Genet (2013) 1.24
Epigenetic mechanisms in diabetic complications and metabolic memory. Diabetologia (2014) 1.22
MethylSig: a whole genome DNA methylation analysis pipeline. Bioinformatics (2014) 1.22
A parent-of-origin effect on honeybee worker ovary size. Proc Biol Sci (2013) 1.22
Resources for methylome analysis suitable for gene knockout studies of potential epigenome modifiers. Gigascience (2012) 1.22
Whole-genome bisulfite sequencing of multiple individuals reveals complementary roles of promoter and gene body methylation in transcriptional regulation. Genome Biol (2014) 1.19
Next-generation sequencing techniques for eukaryotic microorganisms: sequencing-based solutions to biological problems. Eukaryot Cell (2010) 1.18
A quality control system for profiles obtained by ChIP sequencing. Nucleic Acids Res (2013) 1.18
Translational research platforms integrating clinical and omics data: a review of publicly available solutions. Brief Bioinform (2014) 1.17
MethHC: a database of DNA methylation and gene expression in human cancer. Nucleic Acids Res (2014) 1.17
MBD-seq as a cost-effective approach for methylome-wide association studies: demonstration in 1500 case--control samples. Epigenomics (2012) 1.16
Reducing the risk of false discovery enabling identification of biologically significant genome-wide methylation status using the HumanMethylation450 array. BMC Genomics (2014) 1.16
High-resolution profiling of histone methylations in the human genome. Cell (2007) 85.74
Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature (2008) 75.40
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09
Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature (2007) 65.18
Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing. Nat Methods (2007) 45.04
Human DNA methylomes at base resolution show widespread epigenomic differences. Nature (2009) 34.27
Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1. Science (2009) 32.97
Highly integrated single-base resolution maps of the epigenome in Arabidopsis. Cell (2008) 32.65
Paired-end mapping reveals extensive structural variation in the human genome. Science (2007) 30.46
Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature (2008) 30.29
Real-time DNA sequencing from single polymerase molecules. Science (2008) 29.53
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Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning. Nature (2008) 26.78
Substantial biases in ultra-short read data sets from high-throughput DNA sequencing. Nucleic Acids Res (2008) 26.36
A chromatin landmark and transcription initiation at most promoters in human cells. Cell (2007) 23.41
A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis. Nat Biotechnol (2008) 21.72
Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome. Nat Genet (2007) 20.22
The nuclear DNA base 5-hydroxymethylcytosine is present in Purkinje neurons and the brain. Science (2009) 18.82
DNA methylation profiling of human chromosomes 6, 20 and 22. Nat Genet (2006) 18.08
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Chromosome-wide and promoter-specific analyses identify sites of differential DNA methylation in normal and transformed human cells. Nat Genet (2005) 15.37
Genome-wide high-resolution mapping and functional analysis of DNA methylation in arabidopsis. Cell (2006) 15.24
MethPrimer: designing primers for methylation PCRs. Bioinformatics (2002) 14.48
The potential and challenges of nanopore sequencing. Nat Biotechnol (2008) 14.24
Genome-wide analysis of Arabidopsis thaliana DNA methylation uncovers an interdependence between methylation and transcription. Nat Genet (2006) 11.88
Targeted and genome-scale strategies reveal gene-body methylation signatures in human cells. Nat Biotechnol (2009) 11.18
The power and the promise of DNA methylation markers. Nat Rev Cancer (2003) 9.32
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Comprehensive high-throughput arrays for relative methylation (CHARM). Genome Res (2008) 8.62
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DNA methylation in the human gamma delta beta-globin locus in erythroid and nonerythroid tissues. Cell (1980) 8.41
Single-molecule sequencing of an individual human genome. Nat Biotechnol (2009) 8.35
Quantitative high-throughput analysis of DNA methylation patterns by base-specific cleavage and mass spectrometry. Proc Natl Acad Sci U S A (2005) 8.10
Continuous base identification for single-molecule nanopore DNA sequencing. Nat Nanotechnol (2009) 8.09
High-throughput DNA methylation profiling using universal bead arrays. Genome Res (2006) 8.05
Targeted bisulfite sequencing reveals changes in DNA methylation associated with nuclear reprogramming. Nat Biotechnol (2009) 7.59
Aging and environmental exposures alter tissue-specific DNA methylation dependent upon CpG island context. PLoS Genet (2009) 7.07
Analysis of repetitive element DNA methylation by MethyLight. Nucleic Acids Res (2005) 6.49
Gene body-specific methylation on the active X chromosome. Science (2007) 6.33
Genome-wide DNA methylation profiling using Infinium® assay. Epigenomics (2009) 6.08
Comparative isoschizomer profiling of cytosine methylation: the HELP assay. Genome Res (2006) 5.99
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Genomic surveys by methylation-sensitive SNP analysis identify sequence-dependent allele-specific DNA methylation. Nat Genet (2008) 5.66
Promoter CpG methylation contributes to ES cell gene regulation in parallel with Oct4/Nanog, PcG complex, and histone H3 K4/K27 trimethylation. Cell Stem Cell (2008) 5.40
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