ArticleGenetics2011
Functional relevance of CpG island length for regulation of gene expression.
Article in Genetics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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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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Who cites it
35 citing papers in PubMed, 68 citations in OpenAlex.
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- Detection and annotation of unique regions in mammalian genomes.G3 (Bethesda, Md.) · 2025Article
- MultiSC: a deep learning pipeline for analyzing multiomics single-cell data.Briefings in bioinformatics · 2024Article
- Emergence and influence of sequence bias in evolutionarily malleable, mammalian tandem arrays.BMC biology · 2023Article
- Gene body methylation in cancer: molecular mechanisms and clinical applications.Clinical epigenetics · 2022Review
- Cytosine methylation regulates DNA bendability depending on the curvature.Chemical science · 2022Article
- Intragenic CpG Islands and Their Impact on Gene Regulation.Frontiers in cell and developmental biology · 2022Review
- Dietary omega-3 fatty acid intake impacts peripheral blood DNA methylation -anti-inflammatory effects and individual variability in a pilot study.The Journal of nutritional biochemistry · 2022Article
- Deciphering the genetic code of DNA methylation.Briefings in bioinformatics · 2021Review
- VDAC Genes Expression and Regulation in Mammals.Frontiers in physiology · 2021Review
- Do weak interactions affect the biological behavior of DNA? A DFT study of CpG island-like chains.Journal of molecular modeling · 2020Article
- A review of computational algorithms for CpG islands detection.Journal of biosciences · 2019Review
- Identification of DNA motifs that regulate DNA methylation.Nucleic acids research · 2019Article
- High-complexity regions in mammalian genomes are enriched for developmental genes.Bioinformatics (Oxford, England) · 2019Article
- Characterization of gene promoters in pig: conservative elements, regulatory motifs and evolutionary trend.PeerJ · 2019Article
- CpG island composition differences are a source of gene expression noise indicative of promoter responsiveness.Genome biology · 2018Article
- GaussianCpG: a Gaussian model for detection of CpG island in human genome sequences.BMC genomics · 2017Article
- Prediction and validation of cis-regulatory elements in 5' upstream regulatory regions of lectin receptor-like kinase gene family in rice.Protoplasma · 2017Article
- Frequent hypermethylation of orphan CpG islands with enhancer activity in cancer.BMC medical genomics · 2016Article
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
CpG islands mark CpG-enriched regions in otherwise CpG-depleted vertebrate genomes. While the regulatory importance of CpG islands is widely accepted, it is little appreciated that CpG islands vary greatly in lengths. For example, CpG islands in the human genome vary ∼30-fold in their lengths. Here we report findings suggesting that the lengths of CpG islands have functional consequences. Specifically, we show that promoters associated with long CpG islands (long-CGI promoters) are distinct from other promoters. First, long-CGI promoters are uniquely associated with genes with an intermediate level of gene expression breadths. Notably, intermediate expression breadths require the most complex mode of gene regulation, from the standpoint of information content. Second, long-CGI promoters encode more RNA polymerase II (Polr2a) binding sites than other promoters. Third, the actual binding patterns of Polr2a occur in a more tissue-specific manner in long-CGI promoters compared to other CGI promoters. Moreover, long-CGI promoters contain the largest numbers of experimentally characterized transcription start sites compared to other promoters, and the types of transcription start sites in them are biased toward tissue-specific patterns of gene expression. Finally, long-CGI promoters are preferentially associated with genes involved in development and regulation. Together, these findings indicate that functionally relevant variations of CpG islands exist. By investigating consequences of certain CpG island traits, we can gain additional insights into the mechanism and evolution of regulatory complexity of gene expression.
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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.