{
  "abstract": "Virtual cells are evolving from single-task predictive models toward programmable biological simulation systems, yet heterogeneous data, models, and validation evidence still lack a unified organizational framework. Here, we present PRAXIS-VirtualCell, a modular framework that organizes biological data, predictive models, perturbations, adapters, execution environments, and validation evidence to enable reproducible and auditable virtual experiments. The system supports cross-species tasks spanning Escherichia coli, Saccharomyces cerevisiae, and human K562 cells, while using biological contracts and evidence-aware execution to distinguish supported predictions from extrapolation and abstention. By further integrating agentic orchestration, PRAXIS-VirtualCell automatically translates natural-language questions into traceable virtual experiments, providing a unified runtime foundation for trustworthy and scalable Virtual Cell systems.",
  "abstract_shown": true,
  "affiliations": [],
  "article_type": null,
  "arxiv": "2609.29221",
  "author_total": 2,
  "authors": [
    {
      "name": "Zhenyu Ma"
    },
    {
      "name": "Xukai Jiang"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/ej8e73wvfechv.bib",
  "cited_by": 0,
  "doi": "10.48550/arxiv.2609.29221",
  "fulltext_url": null,
  "id": "ej8e73wvfechv",
  "issns": [],
  "landing_url": "https://arxiv.org/abs/2609.29221",
  "language": null,
  "licence": "LicenseRef-arXiv-nonexclusive-1.0",
  "licence_label": "arXiv licence",
  "licence_source": "article",
  "licence_url": "http://arxiv.org/licenses/nonexclusive-distrib/1.0/",
  "metadata_licence": "CC0-1.0",
  "native_subjects": [
    [
      "arxiv",
      "q-bio.QM"
    ],
    [
      "openalex",
      "1802|Scientific Computing and Data Management"
    ]
  ],
  "openalex": "W7214350719",
  "pdf_url": "https://arxiv.org/pdf/2609.29221",
  "pmcid": null,
  "pmid": null,
  "published": "2026-09-24",
  "publisher": null,
  "ris": "https://research.draconitic.com/paper/ej8e73wvfechv.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:24:16Z",
      "native_id": "2609.29221",
      "source": "arxiv",
      "url": "https://arxiv.org/abs/2609.29221"
    }
  ],
  "subjects": [
    {
      "field": "biology",
      "origin": "arxiv:q-bio.QM",
      "subfield": "bioinformatics"
    }
  ],
  "title": "PRAXIS-VirtualCell: A Programmable and Trustworthy Framework for Agentic Virtual Cell Experiments",
  "title_text": "PRAXIS-VirtualCell: A Programmable and Trustworthy Framework for Agentic Virtual Cell Experiments",
  "type": "preprint",
  "updated_at": "2026-10-30T12:24:16Z",
  "url": "https://research.draconitic.com/paper/ej8e73wvfechv",
  "venue": "arXiv",
  "versions": []
}