ArticleNucleic acids research2009
Genome-wide colonization of gene regulatory elements by G4 DNA motifs.
Article in Nucleic acids research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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Who cites it
37 citing papers in PubMed, 91 citations in OpenAlex.
- DNA base lesion-containing G-quadruplex mediates transcriptome reprogramming in EGFR-TKI resistance of non-small cell lung cancer.Journal of experimental & clinical cancer research : CR · 2026Article
- Genomic and Transcriptomic Insights into the Evolution and Parasitic Strategy of the Woody-Plant NematodeMolecular plant-microbe interactions : MPMI · 2026Article
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- TZAP overexpression induces telomere dysfunction and ALT-like activity in ATRX/DAXX-deficient cells.iScience · 2023Article
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- Epigenomic Features and Potential Functions of KInternational journal of molecular sciences · 2022Article
- High-throughput techniques enable advances in the roles of DNA and RNA secondary structures in transcriptional and post-transcriptional gene regulation.Genome biology · 2022Review
- Epigenomic features of DNA G-quadruplexes and their roles in regulating rice gene transcription.Plant physiology · 2022Article
- Decoding regulatory associations of G-quadruplex with epigenetic and transcriptomic functional components.Frontiers in genetics · 2022Article
- The Dynamics of NO3- and NH4+ Uptake in Duckweed Are Coordinated with the Expression of Major Nitrogen Assimilation Genes.Plants (Basel, Switzerland) · 2021Article
- DNA G-quadruplex structures: more than simple roadblocks to transcription?Nucleic acids research · 2021Review
- Identifying the causes and consequences of assembly gaps using a multiplatform genome assembly of a bird-of-paradise.Molecular ecology resources · 2021Article
- Characterization of G-quadruplex antibody reveals differential specificity for G4 DNA forms.DNA research : an international journal for rapid publication of reports on genes and genomes · 2020Article
- MYCN amplification and ATRX mutations are incompatible in neuroblastoma.Nature communications · 2020Article
- Integrative characterization of G-Quadruplexes in the three-dimensional chromatin structure.Epigenetics · 2019Article
- The Interplay between G-quadruplex and Transcription.Current medicinal chemistry · 2019Review
- A G-Quadruplex Structure in the Promoter Region ofInternational journal of molecular sciences · 2018Article
- Telomere Homeostasis: Interplay with Magnesium.International journal of molecular sciences · 2018Review
- Structure, Properties, and Biological Relevance of the DNA and RNA G-Quadruplexes: Overview 50 Years after Their Discovery.Biochemistry. Biokhimiia · 2016Article
- G-quadruplex prediction in E. coli genome reveals a conserved putative G-quadruplex-Hairpin-Duplex switch.Nucleic acids research · 2016Article
Corrections and comments
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Authors and funding
3 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
G-quadruplex (or G4 DNA), a stable four-stranded structure found in guanine-rich regions, is implicated in the transcriptional regulation of genes involved in growth and development. Previous studies on the role of G4 DNA in gene regulation mostly focused on genomic regions proximal to transcription start sites (TSSs). To gain a more comprehensive understanding of the regulatory role of G4 DNA, we examined the landscape of potential G4 DNA (PG4Ms) motifs in the human genome and found that G4 motifs, not restricted to those found in the TSS-proximal regions, are bias toward gene-associated regions. Significantly, analyses of G4 motifs in seven types of well-known gene regulatory elements revealed a constitutive enrichment pattern and the clusters of G4 motifs tend to be colocalized with regulatory elements. Considering our analysis from a genome evolutionary perspective, we found evidence that the occurrence and accumulation of certain progenitors and canonical G4 DNA motifs within regulatory regions were progressively favored by natural selection. Our results suggest that G4 DNA motifs are 'colonized' in regulatory regions, supporting a likely genome-wide role of G4 DNA in gene regulation. We hypothesize that G4 DNA is a regulatory apparatus situated in regulatory elements, acting as a molecular switch that can modulate the role of the host functional regions, by transition in DNA structure.
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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.