ArticleEpigenetics & chromatin2017
Regions of common inter-individual DNA methylation differences in human monocytes: genetic basis and potential function.
Article in Epigenetics & chromatin, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 36 citations in OpenAlex.
- Systematic investigation of interindividual variation of DNA methylation in human whole blood.Genome biology · 2026Article
- Mechanism of parent-of-origin effects revealed by multi-omic data in euro-chinese hybrid pigs.Nature communications · 2025Article
- No indications of weight gain associated DNA methylation changes in patients with anorexia nervosa.Scientific reports · 2025Article
- Genome-Wide DNA Methylation Profiling as a Prognostic Marker in Pituitary Adenomas-A Pilot Study.Cancers · 2024Article
- Epigenetic analyses in forensic medicine: future and challenges.International journal of legal medicine · 2024Review
- A critical appraisal of clinical epigenetics.Clinical epigenetics · 2022Article
- Advances in Genetics and Epigenetic Alterations in Alzheimer's Disease: A Notion for Therapeutic Treatment.Genes · 2021Review
- Large-scale DNA demethylation occurs in proliferating ovarian granulosa cells during mouse follicular development.Communications biology · 2021Article
- Article
- Whole-genome methylation analysis of testicular germ cells from cryptozoospermic men points to recurrent and functionally relevant DNA methylation changes.Clinical epigenetics · 2021Article
- wg-blimp: an end-to-end analysis pipeline for whole genome bisulfite sequencing data.BMC bioinformatics · 2020Article
- Identification of Novel Human Monocyte Subsets and Evidence for Phenotypic Groups Defined by Interindividual Variations of Expression of Adhesion Molecules.Scientific reports · 2020Article
- Epigenetic regulation of gene expression in Chinese Hamster Ovary cells in response to the changing environment of a batch culture.Biotechnology and bioengineering · 2019Article
- Integrative analysis with expanded DNA methylation data reveals common key regulators and pathways in cancers.NPJ genomic medicine · 2019Article
Corrections and comments
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Authors and funding
14 authors at 7 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThere is increasing evidence for inter-individual methylation differences at CpG dinucleotides in the human genome, but the regional extent and function of these differences have not yet been studied in detail. For identifying regions of common methylation differences, we used whole genome bisulfite sequencing data of monocytes from five donors and a novel bioinformatic strategy.
resultsWe identified 157 differentially methylated regions (DMRs) with four or more CpGs, almost none of which has been described before. The DMRs fall into different chromatin states, where methylation is inversely correlated with active, but not repressive histone marks. However, methylation is not correlated with the expression of associated genes. High-resolution single nucleotide polymorphism (SNP) genotyping of the five donors revealed evidence for a role of cis-acting genetic variation in establishing methylation patterns. To validate this finding in a larger cohort, we performed genome-wide association studies (GWAS) using SNP genotypes and 450k array methylation data from blood samples of 1128 individuals. Only 30/157 (19%) DMRs include at least one 450k CpG, which shows that these arrays miss a large proportion of DNA methylation variation. In most cases, the GWAS peak overlapped the CpG position, and these regions are enriched for CREB group, NF-1, Sp100 and CTCF binding motifs. In two cases, there was tentative evidence for a trans-effect by KRAB zinc finger proteins.
conclusionsAllele-specific DNA methylation occurs in discrete chromosomal regions and is driven by genetic variation in cis and trans, but in general has little effect on gene expression.
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