{
  "abstract": "Single-cell RNA sequencing (scRNA-seq) studies often profile only one or a few biological samples, limiting assessment of discovery stability under between-sample variation. We present scStable, a framework for assessing scRNA-seq analysis stability by generating synthetic samples that preserve cell-level heterogeneity from a single-sample reference while injecting bulk-derived between-sample variation. In gastric cancer data comprising 21 matched scRNA-seq and bulk RNA-seq profiles, scStable better recapitulates observed between-sample variation than ZINB-WaVE, subsampling, and Gaussian noise injection. Using synthetic sam-ples, scStable enables stability-aware analysis, including prioritization of stable differentially expressed genes and selection of clustering methods and hyperparameters.",
  "abstract_shown": true,
  "affiliations": [
    "Fred Hutchinson Cancer Center"
  ],
  "article_type": "New results",
  "arxiv": null,
  "author_total": 2,
  "authors": [
    {
      "name": "C. Jiang"
    },
    {
      "affs": [
        0
      ],
      "name": "J. J. Li"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/2e5bqf1s1d2b1.bib",
  "cited_by": 0,
  "doi": "10.64898/2026.10.01.755876",
  "fulltext_url": "https://www.biorxiv.org/content/10.64898/2026.10.01.755876v1.full",
  "id": "2e5bqf1s1d2b1",
  "issns": [],
  "landing_url": "https://www.biorxiv.org/content/10.64898/2026.10.01.755876v1",
  "language": null,
  "licence": "CC-BY-NC-ND",
  "licence_label": "CC BY-NC-ND",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by-nc-nd/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "biorxiv",
      "bioinformatics"
    ],
    [
      "openalex",
      "1312|Single-cell and spatial transcriptomics"
    ]
  ],
  "openalex": "W7221020281",
  "pdf_url": "https://www.biorxiv.org/content/10.64898/2026.10.01.755876v1.full.pdf",
  "pmcid": null,
  "pmid": null,
  "published": "2026-10-01",
  "publisher": null,
  "ris": "https://research.draconitic.com/paper/2e5bqf1s1d2b1.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:26:33Z",
      "native_id": "10.64898/2026.10.01.755876",
      "source": "biorxiv",
      "url": "https://www.biorxiv.org/content/10.64898/2026.10.01.755876v1"
    }
  ],
  "subjects": [
    {
      "field": "biology",
      "origin": "biorxiv:bioinformatics",
      "subfield": "bioinformatics"
    }
  ],
  "title": "scStable: assessing scRNA-seq analysis stability under bulk-derived between-sample variation",
  "title_text": "scStable: assessing scRNA-seq analysis stability under bulk-derived between-sample variation",
  "type": "preprint",
  "updated_at": "2026-10-30T12:26:33Z",
  "url": "https://research.draconitic.com/paper/2e5bqf1s1d2b1",
  "venue": "bioRxiv",
  "versions": []
}