{
  "abstract": "Genome mining typically begins with known genes or protein families, which can make systems defined primarily by genomic organization difficult to detect. We developed a DNA-first framework combining asymmetric-covariance natural-vector representations with generic positional recurrence, joining separately calibrated signals through genomic coordinates. In benchmarks of array-associated reverse transcriptase (ART) loci, the target-free mathematical arm localized seven of eight predeclared loci, including all seven with exact-array coordinates. Dual-arm signals occurred in none of three non-array RT controls and in one of five UG27 systems, indicating selectivity within these small control sets. A separate profile-guided search of 6.12 Gb identified five candidate array-associated RT-like systems. In an independent 54.38-Gb evaluation of this profile-guided arm, structural compatibility was 24/32 under a historical-rule mirror, 12/32 after novelty-only selection, and 0/17 for architecture-selected complete ORFs; the two 32-member panels shared six exact sequences. Together, these results suggest that mathematical features of raw DNA can complement protein-directed searches in nominating genomic architectures for experimental RNA-to-DNA studies.",
  "abstract_shown": true,
  "affiliations": [
    "Department of Mathematical Sciences, Tsinghua University"
  ],
  "article_type": "New results",
  "arxiv": null,
  "author_total": 3,
  "authors": [
    {
      "name": "G. Hu"
    },
    {
      "name": "H. Wang"
    },
    {
      "affs": [
        0
      ],
      "name": "S. S.-T. Yau"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/d6yj97b4rws8w.bib",
  "cited_by": 0,
  "doi": "10.64898/2026.11.01.763506",
  "fulltext_url": "https://www.biorxiv.org/content/10.64898/2026.11.01.763506v1.full",
  "id": "d6yj97b4rws8w",
  "issns": [],
  "landing_url": "https://www.biorxiv.org/content/10.64898/2026.11.01.763506v1",
  "language": null,
  "licence": "CC-BY",
  "licence_label": "CC BY",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "biorxiv",
      "bioinformatics"
    ]
  ],
  "openalex": null,
  "pdf_url": "https://www.biorxiv.org/content/10.64898/2026.11.01.763506v1.full.pdf",
  "pmcid": null,
  "pmid": null,
  "published": "2026-11-01",
  "publisher": null,
  "ris": "https://research.draconitic.com/paper/d6yj97b4rws8w.ris",
  "sources": [
    {
      "first_seen": "2026-11-05T00:21:58Z",
      "native_id": "10.64898/2026.11.01.763506",
      "source": "biorxiv",
      "url": "https://www.biorxiv.org/content/10.64898/2026.11.01.763506v1"
    }
  ],
  "subjects": [
    {
      "field": "biology",
      "origin": "biorxiv:bioinformatics",
      "subfield": "bioinformatics"
    }
  ],
  "title": "Deterministic DNA-first discovery reveals recurrent genomic architectures",
  "title_text": "Deterministic DNA-first discovery reveals recurrent genomic architectures",
  "type": "preprint",
  "updated_at": "2026-11-06T00:21:42Z",
  "url": "https://research.draconitic.com/paper/d6yj97b4rws8w",
  "venue": "bioRxiv",
  "versions": []
}