{
  "abstract": "Coarse RNA coordinate representations are widely used, yet the biological information they encode remains unquantified. We introduce FORGE, which converts a seven-atom RNA geometry representation into 935 interpretable descriptors and reports which residue-level annotations this geometry supports. On 4,135 post-2025 RNA chains, FORGE recovered 64.6% of native nucleotides; a six-atom control lacking the glycosidic nitrogen retained 58.5%, locating most of this signal in phosphate-sugar geometry. Confidence was sharply graded: abstaining from the least-confident half of positions raised accuracy to 94.4%, yet many chains remained only partially identifiable. The same descriptors predicted base-pair state far better than a DMS-like proxy or protein-proximal context. Native-decoy, OpenKnot and solved-pseudoknot analyses showed that nucleotide identifiability, foldability and experimental design score are separable: AlphaFold3 reproduced the experimental fold for one of four AI-designed constructs and none of the sequences FORGE read from their geometry. FORGE provides a reproducible audit layer for RNA structural interpretation.",
  "abstract_shown": true,
  "affiliations": [
    "Central South University"
  ],
  "article_type": "New results",
  "arxiv": null,
  "author_total": 6,
  "authors": [
    {
      "name": "L. Gow"
    },
    {
      "affs": [
        0
      ],
      "name": "J. Li"
    },
    {
      "name": "X. Tan"
    },
    {
      "name": "K. Liang"
    },
    {
      "name": "N. Gui"
    },
    {
      "name": "B. Luo"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/99whfk6vvss0q.bib",
  "cited_by": 0,
  "doi": "10.64898/2026.07.05.736550",
  "fulltext_url": "https://www.biorxiv.org/content/10.64898/2026.07.05.736550v3.full",
  "id": "99whfk6vvss0q",
  "issns": [],
  "landing_url": "https://www.biorxiv.org/content/10.64898/2026.07.05.736550v3",
  "language": null,
  "licence": "CC-BY-NC",
  "licence_label": "CC BY-NC",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by-nc/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "biorxiv",
      "bioinformatics"
    ],
    [
      "openalex",
      "1312|RNA and protein synthesis mechanisms"
    ]
  ],
  "openalex": "W7167636933",
  "pdf_url": "https://www.biorxiv.org/content/10.64898/2026.07.05.736550v3.full.pdf",
  "pmcid": null,
  "pmid": null,
  "published": "2026-07-05",
  "publisher": null,
  "ris": "https://research.draconitic.com/paper/99whfk6vvss0q.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:22:50Z",
      "native_id": "10.64898/2026.07.05.736550",
      "source": "biorxiv",
      "url": "https://www.biorxiv.org/content/10.64898/2026.07.05.736550v3"
    }
  ],
  "subjects": [
    {
      "field": "biology",
      "origin": "biorxiv:bioinformatics",
      "subfield": "bioinformatics"
    }
  ],
  "title": "FORGE audits residue-level information encoded in RNA tertiary structure geometry",
  "title_text": "FORGE audits residue-level information encoded in RNA tertiary structure geometry",
  "type": "preprint",
  "updated_at": "2026-10-30T12:22:50Z",
  "url": "https://research.draconitic.com/paper/99whfk6vvss0q",
  "venue": "bioRxiv",
  "versions": []
}