SynthesisClinical epigenetics2017
An empirically driven data reduction method on the human 450K methylation array to remove tissue specific non-variable CpGs.
Synthesis in Clinical epigenetics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers, 4 of them syntheses that pooled it.
What it found
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The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
34 citing papers in PubMed, 4 syntheses or guidelines pooled it.
- Meta-analysis examining fetal sex-specific placental DNA methylation intensities and estimated cell composition post IVF.Molecular human reproduction · 2025Pooled it
- Epigenetic signatures relating to disease-associated genotypic burden in familial risk of bipolar disorder.Translational psychiatry · 2022Pooled it
- Maternal anxiety during pregnancy and newborn epigenome-wide DNA methylation.Molecular psychiatry · 2021Pooled it
- DNA methylation and body mass index from birth to adolescence: meta-analyses of epigenome-wide association studies.Genome medicine · 2020Pooled it
- How nature nurtures: prenatal exposure to green space buffers the effects of maternal stress on neonatal BDNF methylation.Molecular psychiatry · 2026Article
- Blood DNA methylation markers are associated with diabetic kidney disease progression in type 1 diabetes.Diabetologia · 2026Article
- Distinct maternal DNA methylation associations with gestational age at early and late-mid term pregnancy in a low- and middle-income country: evaluation of biological, genetic, and psychosocial contributors.BMC pregnancy and childbirth · 2025Article
- Profiling the cell-specific small non-coding RNA transcriptome of the human placenta.Scientific reports · 2025Article
- Epigenome-wide association study of placental co-methylated regions in newborns for prenatal opioid exposure.Environmental epigenetics · 2025Article
- Stability of Blood DNA Methylation Across Two Timepoints in Three Cohorts.Biomedicines · 2024Article
- Association between maternal perinatal stress and depression and infant DNA methylation in the first year of life.Translational psychiatry · 2024Article
- Epigenome-wide association study of DNA methylation in maternal blood leukocytes with BMI in pregnancy and gestational weight gain.International journal of obesity (2005) · 2024Article
- Association between Maternal Perinatal Stress and Depression on Infant DNA Methylation in the First Year of Life.Research square · 2024Article
- Linking Prenatal Environmental Exposures to Lifetime Health with Epigenome-Wide Association Studies: State-of-the-Science Review and Future Recommendations.Environmental health perspectives · 2023Review
- A novel approach to risk exposure and epigenetics-the use of multidimensional context to gain insights into the early origins of cardiometabolic and neurocognitive health.BMC medicine · 2023Article
- Maternal-infant interaction quality is associated with child NR3C1 CpG site methylation at 7 years of age.American journal of human biology : the official journal of the Human Biology Council · 2023Article
- Nicotinamide riboside supplementation is not associated with altered methylation homeostasis in Parkinson's disease.iScience · 2023Article
- Who's afraid of the X? Incorporating the X and Y chromosomes into the analysis of DNA methylation array data.Epigenetics & chromatin · 2023Article
- eoPred: predicting the placental phenotype of early-onset preeclampsia using public DNA methylation data.Frontiers in genetics · 2023Article
- Profiling placental DNA methylation associated with maternal SSRI treatment during pregnancy.Scientific reports · 2022Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
backgroundPopulation based epigenetic association studies of disease and exposures are becoming more common with the availability of economical genome-wide technologies for interrogation of the methylome, such as the Illumina 450K Human Methylation Array (450K). Often, the expected small number of differentially methylated cytosine-guanine pairs (CpGs) in studies of the human methylome presents a statistical challenge, as the large number of CpGs measured on the 450K necessitates careful multiple test correction. While the 450K is a highly useful tool for population epigenetic studies, many of the CpGs tested are not variable and thus of limited information content in the context of the study and tissue. CpGs with observed lack of variability in the tissue under study could be removed to reduce the data dimensionality, limit the severity of multiple test correction and allow for improved detection of differential DNA methylation.
methodsHere, we performed a meta-analysis of 450K data from three commonly studied human tissues, namely blood (605 samples), buccal epithelial cells (121 samples) and placenta (157 samples). We developed lists of CpGs that are non-variable in each tissue.
resultsThese lists are surprisingly large (blood 114,204 CpGs, buccal epithelial cells 120,009 CpGs and placenta 101,367 CpGs) and thus will be valuable filters for epigenetic association studies, considerably reducing the dimensionality of the 450K and subsequently the multiple testing correction severity.
conclusionsWe propose this empirically derived method for data reduction to allow for more power in detecting differential DNA methylation associated with exposures in studies on the human methylome.
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