ArticleBMC genetics2018
Comparison of novel and existing methods for detecting differentially methylated regions.
Article in BMC genetics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed, 20 citations in OpenAlex.
- Epigenome-wide analysis of DNA-methylation signatures following climate-related disasters.BMC medicine · 2026Article
- ReMeDy: A Flexible Statistical Framework For Region-based Detection of DNA Methylation Dysregulation.bioRxiv : the preprint server for biology · 2026Article
- mfSuSiE enables multi-cell-type fine-mapping and multi-omic integration of chromatin accessibility QTLs in aging brain.bioRxiv : the preprint server for biology · 2025Article
- fSuSiE enables fine-mapping of QTLs from genome-scale molecular profiles.bioRxiv : the preprint server for biology · 2025Article
- Gbdmr: identifying differentially methylated CpG regions in the human genome via generalized beta regressions.BMC bioinformatics · 2024Article
- An evaluation of the genome-wide false positive rates of common methods for identifying differentially methylated regions using illumina methylation arrays.Epigenetics · 2022Article
- Obesity-Associated Differentially Methylated Regions in Colon Cancer.Journal of personalized medicine · 2022Article
- A Mixture of Endocrine Disrupting Chemicals Associated with Lower Birth Weight in Children Induces Adipogenesis and DNA Methylation Changes in Human Mesenchymal Stem Cells.International journal of molecular sciences · 2022Article
- Identification of two methylated fragments of an SDC2 CpG island using a sliding window technique for early detection of colorectal cancer.FEBS open bio · 2021Article
- Article
- Fibrate pharmacogenomics: expanding past the genome.Pharmacogenomics · 2020Article
- Application of novel and existing methods to identify genes with evidence of epigenetic association: results from GAW20.BMC genetics · 2018Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
Abstract
backgroundSingle-probe analyses in epigenome-wide association studies (EWAS) have identified associations between DNA methylation and many phenotypes, but do not take into account information from neighboring probes. Methods to detect differentially methylated regions (DMRs) (clusters of neighboring probes associated with a phenotype) may provide more power to detect associations between DNA methylation and diseases or phenotypes of interest.
resultsWe proposed a novel approach, GlobalP, and perform comparisons with 3 methods-DMRcate, Bumphunter, and comb-p-to identify DMRs associated with log triglycerides (TGs) in real GAW20 data before and after fenofibrate treatment. We applied these methods to the summary statistics from an EWAS performed on the methylation data. Comb-p, DMRcate, and GlobalP detected very similar DMRs near the gene CPT1A on chromosome 11 in both the pre- and posttreatment data. In addition, GlobalP detected 2 DMRs before fenofibrate treatment in the genes ETV6 and ABCG1. Bumphunter identified several DMRs on chromosomes 1 and 20, which did not overlap with DMRs detected by other methods.
conclusionsOur novel method detected the same DMR identified by two existing methods and detected two additional DMRs not identified by any of the existing methods we compared.
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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.