ArticlePatterns (New York, N.Y.)2020
Patterns of Reliability: Assessing the Reproducibility and Integrity of DNA Methylation Measurement.
Article in Patterns (New York, N.Y.), 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 103 papers, 4 of them syntheses that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
103 citing papers in PubMed, 4 syntheses or guidelines pooled it.
- Pooled it
- Decoding depression: a comprehensive multi-cohort exploration of blood DNA methylation using machine learning and deep learning approaches.Translational psychiatry · 2024Pooled it
- Systematic Review and Meta-analysis of Peripheral Blood DNA Methylation Studies in Inflammatory Bowel Disease.Journal of Crohn's & colitis · 2023Pooled it
- A systematic review of childhood maltreatment and DNA methylation: candidate gene and epigenome-wide approaches.Translational psychiatry · 2021Pooled it
- Cell-type specific impact of metformin on monocyte epigenetic age reversal in virally suppressed older people living with HIV.Aging cell · 2024Trial
- Effect of long-term caloric restriction on DNA methylation measures of biological aging in healthy adults from the CALERIE trial.Nature aging · 2023Trial
- Epigenome-wide Association Study Analysis of Calorie Restriction in Humans, CALERIETM Trial Analysis.The journals of gerontology. Series A, Biological sciences and medical sciences · 2022Trial
- Biological Versus Technical Reliability of Epigenetic Clocks and Implications for Disease Prognosis and Intervention Response.Aging cell · 2026Article
- An epigenetic speedometer to measure Pace of Aging: FraminghamPACE.medRxiv : the preprint server for health sciences · 2026Article
- Functional, molecular, and digital measurements of biological age.The Journal of clinical investigation · 2026Review
- CpG Atlas: A centralized multi-layer database and AI interface for DNA methylation research.bioRxiv : the preprint server for biology · 2026Article
- Probing buccal-customized epigenetic clocks to investigate socioeconomic and health disparities.GeroScience · 2026Article
- Plasma pTau181 is associated with subjective cognitive concerns but not objective cognitive decline or structural brain integrity measures in midlife.GeroScience · 2026Article
- Early-Life DNA methylation at TRIM6 and TTC23 promoters associates with respiratory infections at one year.Pediatric research · 2026Article
- Tracking DNA methylation-based biological age over 8 years and its association with mortality in community-dwelling older adults.Clinical epigenetics · 2026Article
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- Article
- Systematic investigation of interindividual variation of DNA methylation in human whole blood.Genome biology · 2026Article
- A comparison of differential DNA methylation analysis methods for continuous outcomes: implications for epigenetic studies.Epigenomics · 2026Article
- MicroBayesAge: a maximum likelihood approach to predict epigenetic age using microarray data.GeroScience · 2026Article
43 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
16 authors.
Funding
Abstract
DNA methylation plays an important role in both normal human development and risk of disease. The most utilized method of assessing DNA methylation uses BeadChips, generating an epigenome-wide "snapshot" of >450,000 observations (probe measurements) per assay. However, the reliability of each of these measurements is not equal, and little consideration is paid to consequences for research. We correlated repeat measurements of the same DNA samples using the Illumina HumanMethylation450K and the Infinium MethylationEPIC BeadChips in 350 blood DNA samples. Probes that were reliably measured were more heritable and showed consistent associations with environmental exposures, gene expression, and greater cross-tissue concordance. Unreliable probes were less replicable and generated an unknown volume of false negatives. This serves as a lesson for working with DNA methylation data, but the lessons are equally applicable to working with other data: as we advance toward generating increasingly greater volumes of data, failure to document reliability risks harming reproducibility.
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.