{
  "abstract": "Background: G-quadruplexes (G4s) are non-canonical DNA structures with important regulatory functions. While several transcription factors have been shown to interact with G4s, a comprehensive understanding of this interaction network remains elusive.\n\nResults: Here, we integrated genome-wide predictions of highly stable G-quadruplex sequences with 32,817 ChIP-seq datasets from ChIP-Atlas to systematically map transcription factors and transcription-associated chromatin proteins linked to G4-rich regions in the human genome. Highly stable G4 motifs are non-randomly distributed, showing strong enrichment in gene-dense chromosomes, at promoters, regulatory regions, and repeat elements. Integration with transcription factor binding profiles revealed a broad spectrum of G4-associated proteins, including established interactors such as STAT3, TP53 and CTCF, and the transcription-associated chromatin regulator BRD4, as well as previously unrecognized candidates such as REST, NR3C1, FLI1, and HSF1. Unexpectedly, only a minority of transcription factors were consistently depleted from G4 regions.\n\nConclusions: Our results indicate that G-quadruplex-prone sequences represent a common genomic feature associated with a number of human transcription factors and chromatin-associated regulatory proteins and support a model in which G4-rich regions act as selective regulatory scaffolds shaping transcription factor occupancy and gene regulation.\n\nGraphical abstract:\n\nSupplementary Information: The online version contains supplementary material available at https://doi.org/10.1186/s12864-026-13217-5.",
  "abstract_shown": true,
  "affiliations": [
    "Institute of Biophysics, Czech Academy of Sciences, Královopolská 135, Brno, 612 00 Czech Republic",
    "Faculty of Chemistry, Brno University of Technology, Purkyňova 118, Brno, 612 00 Czech Republic",
    "National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Kamenice 5, Brno, 62500 Czech Republic",
    "Laboratoire d’Optique et Biosciences, Ecole Polytechnique, CNRS, Inserm, Institut Polytechnique de Paris, Palaiseau, 91120 France"
  ],
  "article_type": "research article",
  "arxiv": null,
  "author_total": 5,
  "authors": [
    {
      "affs": [
        0,
        1
      ],
      "name": "Karolína Drápalová"
    },
    {
      "affs": [
        0,
        1
      ],
      "name": "Michaela Dobrovolná"
    },
    {
      "affs": [
        0,
        2
      ],
      "name": "Filip Kledus",
      "orcid": "0009-0003-8671-5700"
    },
    {
      "affs": [
        3
      ],
      "name": "Jean-Louis Mergny"
    },
    {
      "affs": [
        0,
        1
      ],
      "name": "Václav Brázda",
      "orcid": "0000-0003-2837-4226"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/35vhb6y4e82k5.bib",
  "cited_by": 0,
  "doi": "10.1186/s12864-026-13217-5",
  "fulltext_url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC13737716/",
  "id": "35vhb6y4e82k5",
  "issns": [
    "1471-2164"
  ],
  "landing_url": "https://doi.org/10.1186/s12864-026-13217-5",
  "language": "en",
  "licence": "CC-BY-4.0",
  "licence_label": "CC BY 4.0",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "heading",
      "Research"
    ],
    [
      "openalex",
      "1312|DNA and Nucleic Acid Chemistry"
    ]
  ],
  "openalex": "W7171713514",
  "pdf_url": null,
  "pmcid": "PMC13737716",
  "pmid": "42989074",
  "published": "2026-07-29",
  "publisher": "BMC",
  "ris": "https://research.draconitic.com/paper/35vhb6y4e82k5.ris",
  "sources": [
    {
      "first_seen": "2026-11-09T12:22:50Z",
      "native_id": "PMC13737716",
      "source": "pmc",
      "url": "https://doi.org/10.1186/s12864-026-13217-5"
    }
  ],
  "subjects": [
    {
      "field": "biochemistry",
      "origin": "openalex:1312|DNA and Nucleic Acid Chemistry",
      "subfield": "molecular-biology"
    }
  ],
  "title": "G‑quadruplexes as regulatory platforms for human transcription factors: insights from ChIP-seq data",
  "title_text": "G‑quadruplexes as regulatory platforms for human transcription factors: insights from ChIP-seq data",
  "type": "peer-reviewed",
  "updated_at": "2026-11-09T12:22:50Z",
  "url": "https://research.draconitic.com/paper/35vhb6y4e82k5",
  "venue": "BMC Genomics",
  "versions": []
}