ArticleGenome biology2014
RRHP: a tag-based approach for 5-hydroxymethylcytosine mapping at single-site resolution.
Article in Genome biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 47 citations in OpenAlex.
- Injured inflammatory environment overrides the TET2 shaped epigenetic landscape of pluripotent stem cell derived human neural stem cells.Scientific reports · 2024Article
- MLACNN: an attention mechanism-based CNN architecture for predicting genome-wide DNA methylation.Theory in biosciences = Theorie in den Biowissenschaften · 2023Article
- DARESOME enables concurrent profiling of multiple DNA modifications with restriction enzymes in single cells and cell-free DNA.Science advances · 2023Article
- Epigenetics in psychiatry: Beyond DNA methylation.World journal of psychiatry · 2023Review
- Genome-wide hydroxymethylation profiles in liver of female Nile tilapia with distinct growth performance.Scientific data · 2023Article
- Epigenetic Regulation of Corneal Epithelial Differentiation by TET2.International journal of molecular sciences · 2023Article
- Current and Emerging Technologies for the Analysis of the Genome-Wide and Locus-Specific DNA Methylation Patterns.Advances in experimental medicine and biology · 2022Article
- DNA methylation and noncoding RNA in OA: Recent findings and methodological advances.Osteoarthritis and cartilage open · 2021Article
- TET1-mediated DNA hydroxymethylation regulates adult remyelination in mice.Nature communications · 2021Article
- TET2 is a component of the estrogen receptor complex and controls 5mC to 5hmC conversion at estrogen receptor cis-regulatory regions.Cell reports · 2021Article
- Selective Chemical Labeling and Sequencing of 5-Hydroxymethylcytosine in DNA at Single-Base Resolution.Frontiers in genetics · 2021Article
- Major gene expression changes and epigenetic remodelling in Nile tilapia muscle after just one generation of domestication.Epigenetics · 2020Article
- TET1 Directs Chondrogenic Differentiation by Regulating SOX9 Dependent Activation ofJBMR plus · 2020Article
- Atm deficiency in the DNA polymerase β null cerebellum results in cerebellar ataxia and Itpr1 reduction associated with alteration of cytosine methylation.Nucleic acids research · 2020Article
- Progress toward liquid biopsies in pediatric solid tumors.Cancer metastasis reviews · 2019Review
- DNA Analysis by Restriction Enzyme (DARE) enables concurrent genomic and epigenomic characterization of single cells.Nucleic acids research · 2019Article
- New guidelines for DNA methylome studies regarding 5-hydroxymethylcytosine for understanding transcriptional regulation.Genome research · 2019Article
- Towards precision medicine: advances in 5-hydroxymethylcytosine cancer biomarker discovery in liquid biopsy.Cancer communications (London, England) · 2019Review
- A Lexicon of DNA Modifications: Their Roles in Embryo Development and the Germline.Frontiers in cell and developmental biology · 2018Review
- Selective inhibition of CTCF binding by iAs directs TET-mediated reprogramming of 5-hydroxymethylation patterns in iAs-transformed cells.Toxicology and applied pharmacology · 2018Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Current methods for genomic mapping of 5-hydroxymethylcytosine (5hmC) have been limited by either costly sequencing depth, high DNA input, or lack of single-base resolution. We present an approach called Reduced Representation 5-Hydroxymethylcytosine Profiling (RRHP) to map 5hmC sites at single-base resolution by exploiting the use of beta-glucosyltransferase to inhibit enzymatic digestion at the junction where adapters are ligated to a genomic library. Therefore, only library fragments presenting glucosylated 5hmC residues at the junction are sequenced. RRHP can detect sites with low 5hmC abundance, and when combined with RRBS data, 5-methylcytosine and 5-hydroxymethylcytosine can be compared at a specific site.
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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.