{
  "abstract": "RNA chemical probing generates nucleotide-resolved profiles in vitro and in cells, while X-ray crystallographic or cryo-electron microscopy models provide high-resolution structural models but remain comparatively low throughput. Aligning these experiments from different modalities may provide insights into RNA structure formation and molecular functions. Here, we present Ribocentre-FoldBridge (https://foldbridge.ribocentre.org/), an AI-assisted, curator-reviewed database linking curated chemical-probing profiles with experimentally determined 3D structures. This database catalogues 12 types of RNAs, linking 256 929 probing profiles across five experimental categories to 5321 structure-linked cases. It interactively visualizes the probing profiles that align with RNA secondary and tertiary structures at nucleotide resolution. We demonstrate probe-specific reactivity patterns across paired, unpaired, and solvent-accessible structural contexts. The database aims to provide a reproducible evidence layer for examining RNA structure–function relationships across heterogeneous experiments, and thus facilitate the development of new RNA structure or function prediction programs.",
  "abstract_shown": true,
  "affiliations": [
    "Guangzhou National Laboratory , No. 9 XingDaoHuanBei Road, Guangzhou International BioIsland, Guangzhou 510005 Guangdong ,",
    "School of Life Sciences, Sun Yat-sen University No. 135 , Xingang Xi Road, Guangzhou 510275 Guangdong ,",
    "Shanghai Key Laboratory of Anesthesiology and Brain Functional Modulation, Clinical Research Center for Anesthesiology and Perioperative Medicine, Translational Research Institute of Brain and Brain-Like Intelligence, Department of Anesthesiology and Perioperative medicine, Shanghai Fourth People’s Hospital, School of Medicine, Tongji University , Shanghai 200434 ,",
    "Bioscience and Biomedical Engineering Thrust, The Hong Kong University of Science and Technology (Guangzhou) , Duxue Road, Nansha District, Guangzhou 511458 Guangdong ,",
    "Guangdong Provincial Key Laboratory of Malignant Tumor Epigenetics and Gene Regulation, Guangdong-Hong Kong Joint Laboratory for RNA Medicine, Medical Research Center, Sun Yat-sen Memorial Hospital, Sun Yat-sen University , Guangzhou 510120 ,",
    "School of Life Science and Technology, ShanghaiTech University , Shanghai 201210 ,",
    "School of Mechanical & Automotive Engineering, South China University of Technology , Guangzhou 510641 ,",
    "GMU-GIBH Joint School of Life Sciences, Guangdong Provincial Key Laboratory of Protein Modification and Disease, The Guangdong-Hong Kong-Macao Joint Laboratory for Cell Fate Regulation and Diseases, Guangzhou Medical University , Guangzhou 511436 Guangdong ,"
  ],
  "article_type": null,
  "arxiv": null,
  "author_total": 9,
  "authors": [
    {
      "affs": [
        0,
        1
      ],
      "name": "Hao Sun"
    },
    {
      "affs": [
        2,
        3
      ],
      "name": "Linyan Hu"
    },
    {
      "affs": [
        4
      ],
      "name": "Xuemei Peng"
    },
    {
      "affs": [
        0,
        5
      ],
      "name": "Wei Zhang"
    },
    {
      "affs": [
        0,
        5
      ],
      "name": "Jiajun Lin"
    },
    {
      "affs": [
        6
      ],
      "name": "Jingyi Huang"
    },
    {
      "affs": [
        3
      ],
      "name": "Cheng Zhang"
    },
    {
      "affs": [
        4
      ],
      "name": "Lin Huang",
      "orcid": "0000-0002-2121-365X"
    },
    {
      "affs": [
        0,
        2,
        7
      ],
      "name": "Zhichao Miao",
      "orcid": "0000-0002-5777-9815"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/fqa9w2xgfpys0.bib",
  "cited_by": 0,
  "doi": "10.1093/nar/gkag1096",
  "fulltext_url": null,
  "id": "fqa9w2xgfpys0",
  "issns": [
    "0305-1048",
    "1362-4962"
  ],
  "landing_url": "https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkag1096/9013045",
  "language": null,
  "licence": "CC-BY-NC-4.0",
  "licence_label": "CC BY-NC 4.0",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by-nc/4.0/",
  "metadata_licence": null,
  "native_subjects": [],
  "openalex": null,
  "pdf_url": "https://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkag1096/73099913/gkag1096.pdf",
  "pmcid": null,
  "pmid": null,
  "published": "2026-11-05",
  "publisher": "Oxford University Press (OUP)",
  "ris": "https://research.draconitic.com/paper/fqa9w2xgfpys0.ris",
  "sources": [
    {
      "first_seen": "2026-11-05T12:20:58Z",
      "native_id": "10.1093/nar/gkag1096",
      "source": "crossref",
      "url": "https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkag1096/9013045"
    }
  ],
  "subjects": [
    {
      "field": "biochemistry",
      "origin": "issn:0305-1048",
      "subfield": "molecular-biology"
    }
  ],
  "title": "Ribocentre-FoldBridge: a comprehensive database bridging RNA chemical probing data and 3D structures",
  "title_text": "Ribocentre-FoldBridge: a comprehensive database bridging RNA chemical probing data and 3D structures",
  "type": "peer-reviewed",
  "updated_at": "2026-11-07T00:21:10Z",
  "url": "https://research.draconitic.com/paper/fqa9w2xgfpys0",
  "venue": "Nucleic Acids Research",
  "versions": []
}