ArticleEpigenetics2018
Cell type-specific DNA methylation in neonatal cord tissue and cord blood: a 850K-reference panel and comparison of cell types.
Article in Epigenetics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers, 2 of them syntheses that pooled it.
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The trial behind it
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Who cites it
26 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Accelerated epigenetic age at birth and child emotional and behavioura development in early childhood: a meta-analysis of four prospective cohort studies in ECHO.Epigenetics · 2023Pooled it
- Epigenome-wide DNA methylation in externalizing behaviours: A review and combined analysis.Neuroscience and biobehavioral reviews · 2023Pooled it
- Cord blood DNA methylation and cell-type composition are not significantly associated with severe preeclampsia after cell-type and clinical covariate adjustment.GigaScience · 2026Article
- DNA methylation as a biomarker of prenatal exposures: current challenges and opportunities.Environmental epigenetics · 2026Review
- Cell type proportions rather than DNA methylation in the cord blood show significant associations with severe preeclampsia.medRxiv : the preprint server for health sciences · 2025Article
- Unified high-resolution immune cell fraction estimation in blood tissue from birth to old age.Genome medicine · 2025Article
- DNA methylation differences between cord and adult white blood cells reflect postnatal immune cell maturation.Communications biology · 2025Article
- Glioma immune microenvironment composition calculator (GIMiCC): a method of estimating the proportions of eighteen cell types from DNA methylation microarray data.Acta neuropathologica communications · 2024Article
- Article
- Prenatal exposures to per- and polyfluoroalkyl substances and epigenetic aging in umbilical cord blood: The Healthy Start study.Environmental research · 2023Article
- Hierarchical deconvolution for extensive cell type resolution in the human brain using DNA methylation.Frontiers in neuroscience · 2023Article
- A systematic assessment of cell type deconvolution algorithms for DNA methylation data.Briefings in bioinformatics · 2022Article
- Prenatal exposure to endocrine disrupting chemicals is associated with altered DNA methylation in cord blood.Epigenetics · 2022Article
- Epigenetic signature of exposure to maternalEpigenomics · 2022Article
- Human non-CpG methylation patterns display both tissue-specific and inter-individual differences suggestive of underlying function.Epigenetics · 2022Article
- Dichotomy in the Impact of Elevated Maternal Glucose Levels on Neonatal Epigenome.The Journal of clinical endocrinology and metabolism · 2022Observational
- Enhanced cell deconvolution of peripheral blood using DNA methylation for high-resolution immune profiling.Nature communications · 2022Article
- SOX14 hypermethylation as a tumour biomarker in cervical cancer.BMC cancer · 2021Article
- Whole-Genome Methylation Analysis Revealed ART-Specific DNA Methylation Pattern of Neuro- and Immune-System Pathways in Chinese Human Neonates.Frontiers in genetics · 2021Article
- Cell Types in Environmental Epigenetic Studies: Biological and Epidemiological Frameworks.Current environmental health reports · 2020Review
Corrections and comments
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Authors and funding
11 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Accounting for cellular heterogeneity is essential in neonatal epigenome-wide association studies (EWAS) performed on heterogeneous tissues, such as umbilical cord tissue (CT) or cord blood (CB). Using a reference-panel-based statistical approach, the cell type composition of heterogeneous tissues can be estimated by comparison of whole tissue DNA methylation profiles with cell type-specific DNA methylation signatures. Currently, there is no adequate DNA methylation reference panel for CT, and existing CB panels have been generated on lower coverage Infinium HumanMethylation450 arrays. In this study, we generate a reference panel for CT and improve available CB panels by using the higher coverage Infinium MethylationEPIC arrays. We performed DNA methylation profiling of 9 cell types isolated from CT and CB samples from 14 neonates. In addition to these cell types, we profiled DNA methylation of unfractionated CT and CB. Cell type composition of these unfractionated tissue samples, as estimated by our reference panels, was in agreement with that obtained by flow cytometry. Expectedly, DNA methylation profiles from CT and CB were distinct, reflecting their mesenchymal and hematopoietic stem cell origins. Variable CpGs from both unfractionated CT and its isolated cell types were more likely to be located in open seas and intronic regions than those in CB. Cell type specific CpGs in CT were enriched in intercellular matrix pathways, while those from CB were enriched in immune-related pathways. This study provides an open source reference panel for estimation and adjustment of cellular heterogeneity in CT and CB, and broadens the scope of tissue utilization assessed in future neonatal EWAS studies.
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