{
  "abstract": "How 3D genome architecture contributes to transcriptional specificity across neuronal cell types remains unclear. Here, we used multiplexed chromatin tracing to map chromatin architecture and cell identity at single-cell resolution in the adult Drosophila brain. We found that enhancer-promoter (E-P) proximity was increased in transcriptionally active compared with inactive neurons. Analysis of single traces revealed the existence of distinct proximal and distal E-P states, with active neurons enriched in the proximal state. However, this relationship broke down across active neuronal subtypes, where neither E-P proximity nor chromatin accessibility predicted transcriptional output. Thus, 3D genome organization distinguishes transcriptionally competent from inactive neuronal states without quantitatively specifying transcriptional output. Our findings support a model in which E-P proximity establishes a permissive structural state, while additional cell-type-specific regulatory mechanisms tune transcriptional output.",
  "abstract_shown": true,
  "affiliations": [],
  "article_type": null,
  "arxiv": "2609.03058",
  "author_total": 7,
  "authors": [
    {
      "name": "Olivier Messina"
    },
    {
      "name": "Loucif Remini"
    },
    {
      "name": "Christopher H. Bohrer"
    },
    {
      "name": "Jean-Bernard Fiche"
    },
    {
      "name": "Jean-Charles Walter"
    },
    {
      "name": "Andrea Parmeggiani"
    },
    {
      "name": "Marcelo Nollmann"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/34x6mbqjaa274.bib",
  "cited_by": 0,
  "doi": "10.48550/arxiv.2609.03058",
  "fulltext_url": null,
  "id": "34x6mbqjaa274",
  "issns": [],
  "landing_url": "https://arxiv.org/abs/2609.03058",
  "language": null,
  "licence": "CC-BY-NC-SA-4.0",
  "licence_label": "CC BY-NC-SA 4.0",
  "licence_source": "article",
  "licence_url": "http://creativecommons.org/licenses/by-nc-sa/4.0/",
  "metadata_licence": "CC0-1.0",
  "native_subjects": [
    [
      "arxiv",
      "q-bio.BM"
    ],
    [
      "arxiv",
      "q-bio.GN"
    ],
    [
      "openalex",
      "1312|Genomics and Chromatin Dynamics"
    ]
  ],
  "openalex": "W7208783064",
  "pdf_url": "https://arxiv.org/pdf/2609.03058",
  "pmcid": null,
  "pmid": null,
  "published": "2026-09-02",
  "publisher": null,
  "ris": "https://research.draconitic.com/paper/34x6mbqjaa274.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:18:37Z",
      "native_id": "2609.03058",
      "source": "arxiv",
      "url": "https://arxiv.org/abs/2609.03058"
    }
  ],
  "subjects": [
    {
      "field": "biochemistry",
      "origin": "arxiv:q-bio.BM",
      "subfield": "biophysics"
    },
    {
      "field": "biology",
      "origin": "arxiv:q-bio.GN",
      "subfield": "genetics-genomics"
    }
  ],
  "title": "Enhancer-promoter proximity predicts transcriptional competence but not transcriptional output in the Drosophila brain",
  "title_text": "Enhancer-promoter proximity predicts transcriptional competence but not transcriptional output in the Drosophila brain",
  "type": "preprint",
  "updated_at": "2026-10-30T12:18:37Z",
  "url": "https://research.draconitic.com/paper/34x6mbqjaa274",
  "venue": "arXiv",
  "versions": []
}