ArticleNucleic acids research2012
Evaluation of single CpG sites as proxies of CpG island methylation states at the genome scale.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
What it found
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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.
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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
29 citing papers in PubMed, 44 citations in OpenAlex.
- CpG Methylation of Protein Prenyltransferase GenesEpigenomes · 2026Article
- Integrating Genomic, eQTL, and Mendelian Randomization Analyses to Identify Microglial Drug Targets in Multiple Sclerosis.Journal of cellular and molecular medicine · 2025Article
- FBLN2 promoter hypermethylation: a negative prognostic biomarker and anti-PD-1 response predictor in clear cell renal cell carcinoma via high-throughput CpG Island screening.Clinical epigenetics · 2025Article
- Nanopore sequencing-derived methylation biomarker prediction for methylation-specific PCR in patients with head and neck squamous cell carcinoma.Clinical epigenetics · 2025Article
- DARESOME enables concurrent profiling of multiple DNA modifications with restriction enzymes in single cells and cell-free DNA.Science advances · 2023Article
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- Methylation of the tyrosine hydroxylase gene is dysregulated by cocaine dependence in the human striatum.iScience · 2021Article
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- DNA Analysis by Restriction Enzyme (DARE) enables concurrent genomic and epigenomic characterization of single cells.Nucleic acids research · 2019Article
- Preliminary Analysis of Within-Sample Co-methylation Patterns in Normal and Cancerous Breast Samples.Cancer informatics · 2019Article
- New Insight into the Molecular Mechanism of theInternational journal of molecular sciences · 2018Article
- Bisulfite-independent analysis of CpG island methylation enables genome-scale stratification of single cells.Nucleic acids research · 2017Article
- The epigenetic landscape of Alu repeats delineates the structural and functional genomic architecture of colon cancer cells.Genome research · 2017Article
- In-silico analysis of cis-acting regulatory elements of pathogenesis-related proteins of Arabidopsis thaliana and Oryza sativa.PloS one · 2017Article
- Quantitative genome-wide methylation analysis of high-grade non-muscle invasive bladder cancer.Epigenetics · 2016Article
- Quantification of unmethylated Alu (QUAlu): a tool to assess global hypomethylation in routine clinical samples.Oncotarget · 2016Article
- Simultaneous Analysis of SEPT9 Promoter Methylation Status, Micronuclei Frequency, and Folate-Related Gene Polymorphisms: The Potential for a Novel Blood-Based Colorectal Cancer Biomarker.International journal of molecular sciences · 2015Article
- The newt (Cynops pyrrhogaster) RPE65 promoter: molecular cloning, characterization and functional analysis.Transgenic research · 2015Article
- Multiplexed locus-specific analysis of DNA methylation in single cells.Nature protocols · 2015Article
- Overlapping DNA methylation dynamics in mouse intestinal cell differentiation and early stages of malignant progression.PloS one · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Methylation of a CpG island is a faithful marker of silencing of its associated gene. Different approaches report the methylation status of a CpG island based on the determination of one or a few CpG sites by assuming the homogeneity of methylation along the element. This strategy is frequently applied in both locus-specific and genome-wide studies, but often without a validation of the representativeness of the interrogated CpG site compared with the whole element. We have evaluated the predictive informativeness of the HpaII sites located in CpG islands using data from high-resolution methylome maps, which offer the possibility to assess the methylation homogeneity of each CpG island and to determine the reporter accuracy of single sites as surrogate markers. An excellent correlation was observed between the HpaII and CpG island methylation levels (r > 0.93). At the qualitative level, the predictive sensitivity of HpaII was >95% with >92% specificity for methylated CpG islands and >90% sensitivity with >95% specificity for unmethylated CpG islands. This analysis provides a global validation framework for strategies based on the use of the methylation-sensitive HpaII restriction enzyme.
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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.