ArticleGenome research2004
Preference of DNA methyltransferases for CpG islands in mouse embryonic stem cells.
Article in Genome research, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 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.
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
21 citing papers in PubMed, 78 citations in OpenAlex.
- Single-molecule tracking of DNMT1 in living cells reveals its cell cycle dynamics and its redistribution upon drug treatment.Nucleic acids research · 2026Article
- The Crucial Role of Epigenetic Modifications in Wharton's Jelly Stem Cells.International journal of molecular sciences · 2025Review
- Expanded methylome and quantitative trait loci detection by long-read profiling of personal DNA.Genome research · 2025Article
- Epigenetic regulation of matrix metalloproteinases in inflammatory diseases: a narrative review.Cell & bioscience · 2020Review
- The Genomic Impact of DNA CpG Methylation on Gene Expression; Relationships in Prostate Cancer.Biomolecules · 2017Review
- DNA methylation in hematopoietic development and disease.Experimental hematology · 2016Review
- Epigenetics: A primer for clinicians.Blood reviews · 2016Review
- DNMT3A in haematological malignancies.Nature reviews. Cancer · 2015Review
- Chromatin Memory in the Development of Human Cancers.Gene technology · 2014Article
- DNA methylation is required for the control of stem cell differentiation in the small intestine.Genes & development · 2014Article
- Aberrant methylation of the TDMR of the GTF2A1L promoter does not affect fertilisation rates via TESE in patients with hypospermatogenesis.Asian journal of andrology · 2013Article
- Brief demethylation step allows the conversion of adult human skin fibroblasts into insulin-secreting cells.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- Stable transmission of reversible modifications: maintenance of epigenetic information through the cell cycle.Cellular and molecular life sciences : CMLS · 2011Review
- Quantitative proteome analysis of pluripotent cells by iTRAQ mass tagging reveals post-transcriptional regulation of proteins required for ES cell self-renewal.Molecular & cellular proteomics : MCP · 2010Article
- Establishment of trophoblast stem cell lines from somatic cell nuclear-transferred embryos.Proceedings of the National Academy of Sciences of the United States of America · 2009Article
- DNA methylation profile of tissue-dependent and differentially methylated regions (T-DMRs) in mouse promoter regions demonstrating tissue-specific gene expression.Genome research · 2008Article
- Promoter CpG methylation contributes to ES cell gene regulation in parallel with Oct4/Nanog, PcG complex, and histone H3 K4/K27 trimethylation.Cell stem cell · 2008Article
- Restriction landmark genomic scanning (RLGS) spot identification by second generation virtual RLGS in multiple genomes with multiple enzyme combinations.BMC genomics · 2007Article
- DNA methylation regulates long-range gene silencing of an X-linked homeobox gene cluster in a lineage-specific manner.Genes & development · 2006Article
- Dynamic usage of transcription start sites within core promoters.Genome biology · 2006Article
Corrections and comments
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Authors and funding
8 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Many CpG islands have tissue-dependent and differentially methylated regions (T-DMRs) in normal cells and tissues. To elucidate how DNA methyltransferases (Dnmts) participate in methylation of the genomic components, we investigated the genome-wide DNA methylation pattern of the T-DMRs with Dnmt1-, Dnmt3a-, and/or Dnmt3b-deficient ES cells by restriction landmark genomic scanning (RLGS). Approximately 1300 spots were detected in wild-type ES cells. In Dnmt1(-/-) ES cells, additional 236 spots emerged, indicating that the corresponding loci are methylated by Dnmt1 in wild-type ES cells. Intriguingly, in Dnmt3a(-/-)Dnmt3b(-/-) ES cells, the same 236 spots also emerged, and no additional spots appeared differentially. Therefore, Dnmt1 and Dnmt3a/3b share targets in CpG islands. Cloning and virtual image RLGS revealed that 81% of the RLGS spots were associated with genes, and 62% of the loci were in CpG islands. By contrast to the previous reports that demethylation at repeated sequences was severe in Dnmt1(-/-) cells compared with Dnmt3a(-/-)Dnmt3b(-/-) cells, a complete loss of methylation was observed at RLGS loci in Dnmt3a(-/-)Dnmt3b(-/-) cells, whereas methylation levels only decreased to 16% to 48% in the Dnmt1(-/-) cells. We concluded that there are CpG islands with T-DMR as targets shared by Dnmt1 and Dnmt3a/3b and that each Dnmt has target preferences depending on the genomic components.
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Registered trials
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