ArticleGenes2025
Repeats Influence Structural DNA Properties Around Functional Annotations Associated with 3D Organization and Transcription.
Article in Genes, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.
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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Who cites it
1 citing paper in PubMed.
- An Energy Model Based on Molecular Structure for Predicting Histone Modification Levels at lncRNA Promoter Regions in HepG2 Cells.International journal of molecular sciences · 2026Article
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundWhile the fundamental principles of chromatin 3D organization and its interplay with transcriptional regulation are still not completely understood, increasing evidence suggests a considerable role of DNA repeats. Considering the influence of DNA repeats on local dinucleotide contents, the influence of dinucleotide contents on the structural properties of DNA, their influence on histone affinity, and the influence of histone occupancy on chromatin, an indirect influence of repeats on 3D organization, seems worth testing.
methodsIn this study, we search for global correlations between annotations associated with transcription and 3D organization, dinucleotide contents, DNA properties, and repeats in human and mouse. In a second step, we search for local peaks in DNA properties around those annotations and derive the influences of the dinucleotide and repeat contents (including tandem repeats (TRs) and transposons).
resultsWe identify several strong and significant associations between annotations and DNA properties, which are influenced by a variety of different repeats. Consistent with former findings, the Roll property is found to be especially sensitive to the sequence context.
conclusionsOur results suggest a significant effect of repeats on DNA properties and thus an indirect effect on histone occupancy and 3D chromatin organization.
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