ArticleGenome research2001
Determinants of CpG islands: expression in early embryo and isochore structure.
Article in Genome research, 2001. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
46 citing papers in PubMed.
- Cardiac epigenome in heart development and disease.Nature reviews. Cardiology · 2026Review
- Promoter Region and Regulatory Elements of IGF and VIP Genes Associated With Reproductive Traits in Chicken.International journal of genomics · 2025Article
- Emergence and influence of sequence bias in evolutionarily malleable, mammalian tandem arrays.BMC biology · 2023Article
- Transcriptional regulation ofFrontiers in cell and developmental biology · 2022Article
- Meiosis and beyond - understanding the mechanistic and evolutionary processes shaping the germline genome.Biological reviews of the Cambridge Philosophical Society · 2021Review
- Predicting target genes of non-coding regulatory variants with IRT.Bioinformatics (Oxford, England) · 2020Article
- A report on DNA sequence determinants in gene expression.Bioinformation · 2020Article
- Article
- A benchmark of gene expression tissue-specificity metrics.Briefings in bioinformatics · 2017Article
- Analysis of Promyelocytic Leukemia in Human Embryonic Carcinoma Stem Cells During Retinoic Acid-Induced Neural Differentiation.Iranian journal of biotechnology · 2016Article
- Conserved and divergent patterns of DNA methylation in higher vertebrates.Genome biology and evolution · 2014Article
- Evolutionary history of Methyltransferase 1 genes in hexaploid wheat.BMC genomics · 2014Article
- Relating gene expression evolution with CpG content changes.BMC genomics · 2014Article
- Identification, characterization, and utilization of single copy genes in 29 angiosperm genomes.BMC genomics · 2014Article
- Explaining the correlations among properties of mammalian promoters.Nucleic acids research · 2014Article
- Human genes with CpG island promoters have a distinct transcription-associated chromatin organization.Genome biology · 2012Article
- Replication fork polarity gradients revealed by megabase-sized U-shaped replication timing domains in human cell lines.PLoS computational biology · 2012Article
- Transcription initiation patterns indicate divergent strategies for gene regulation at the chromatin level.PLoS genetics · 2011Article
- Factors affecting synonymous codon usage bias in chloroplast genome of oncidium gower ramsey.Evolutionary bioinformatics online · 2011Article
- Intergenic, gene terminal, and intragenic CpG islands in the human genome.BMC genomics · 2010Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In an attempt to understand the origin of CpG islands (CGIs) in mammalian genomes, we have studied their location and structure according to the expression pattern of genes and to the G + C content of isochores in which they are embedded. We show that CGIs located over the transcription start site (named start CGIs) are very different structurally from the others (named no-start CGIs): (1) 61.6% of the no-start CGIs are due to repeated sequences (79 % are due to Alus), whereas only 5.6% of the start CGIs are due to such repeats; (2) start CGIs are longer and display a higher CpGo/e ratio and G + C level than no-start CGIs. The frequency of tissue-specific genes associated to a start CGI varies according to the genomic G + C content, from 25% in G + C-poor isochores to 64% in G + C-rich isochores. Conversely, the frequency of housekeeping genes associated to a start CGI (90%) is independent of the isochore context. Interestingly, the structure of start CGIs is very similar for tissue-specific and housekeeping genes. Moreover, 93% of genes expressed in early embryo are found to exhibit a CpG island over their transcription start point. These observations are consistent with the hypothesis that the occurrence of these CGIs is the consequence of gene expression at this stage, when the methylation pattern is installed.
Indexed as
Identifiers
What OpenQuestion holds
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.