{
  "abstract": "Ulcerative colitis (UC) is characterized by epithelial barrier disruption, mucosal immune activation, and sustained intestinal inflammation. We developed a biologically interpretable public-transcriptomic signature using Gene Expression Omnibus datasets GSE75214, GSE38713, and GSE92415. A literature-curated panel of 35 mucosal barrier injury-related genes was integrated with differential expression, LASSO regression, random forest prioritization, and ridge logistic regression. Six genes (LCN2, DEFB1, S100A8, MUC1, VIL1, and TJP3) were retained as a locked transcriptomic score. Because the original feature-selection steps used the complete development cohort, we added 50 repetitions of stratified five-fold outer cross-validation. All preprocessing and ridge tuning were restricted to each outer-training fold; the locked score achieved a mean out-of-fold AUC of 0.9660 (SD 0.0031). A stricter sensitivity analysis that repeated differential-expression filtering, LASSO, random-forest ranking, deterministic six-gene selection, and ridge fitting within each outer-training fold achieved a mean out-of-fold AUC of 0.9600 (SD 0.0094). The refitted locked model retained discrimination in GSE38713 (AUC 0.8974, 95% CI 0.8040–0.9909) and GSE92415 (AUC 0.9894, 95% CI 0.9744–1.0000) when one development-derived cutoff was applied unchanged. The six-gene score did not significantly outperform VIL1 alone in the development cohort (DeLong P = 0.4026). The signature should therefore be interpreted as a molecular pattern associated with UC mucosal inflammation and barrier remodeling rather than as a UC-specific clinical diagnostic test.",
  "abstract_shown": true,
  "affiliations": [
    "Graduate School, Guangxi University of Chinese Medicine, Nanning, Guangxi, China.",
    "Department of Anorectal Diseases, The First Affiliated Hospital of Guangxi University of Chinese Medicine, Nanning, Guangxi, China."
  ],
  "article_type": "Research Article",
  "arxiv": null,
  "author_total": 3,
  "authors": [
    {
      "affs": [
        0,
        1
      ],
      "name": "Sen He",
      "orcid": "0009-0001-3188-326X"
    },
    {
      "affs": [
        0,
        1
      ],
      "name": "Pingliang Sun"
    },
    {
      "affs": [
        0,
        1
      ],
      "name": "Xiaoxin Duan"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/awtam0yg1pytm.bib",
  "cited_by": 0,
  "doi": "10.1371/journal.pone.0361599",
  "fulltext_url": "https://europepmc.org/articles/PMC13726911",
  "id": "awtam0yg1pytm",
  "issns": [
    "1932-6203"
  ],
  "landing_url": "https://doi.org/10.1371/journal.pone.0361599",
  "language": "eng",
  "licence": "CC-BY",
  "licence_label": "CC BY",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "heading",
      "Anatomy"
    ],
    [
      "heading",
      "Animal Cells"
    ],
    [
      "heading",
      "Biology and Life Sciences"
    ],
    [
      "heading",
      "Blood Cells"
    ],
    [
      "heading",
      "Cell Biology"
    ],
    [
      "heading",
      "Cellular Types"
    ],
    [
      "heading",
      "Clinical Medicine"
    ],
    [
      "heading",
      "Colitis"
    ],
    [
      "heading",
      "Colon"
    ],
    [
      "heading",
      "Computational Biology"
    ],
    [
      "heading",
      "Digestive System"
    ],
    [
      "heading",
      "Gastroenterology and Hepatology"
    ],
    [
      "heading",
      "Gastrointestinal Tract"
    ],
    [
      "heading",
      "Gene Expression"
    ],
    [
      "heading",
      "Genetics"
    ],
    [
      "heading",
      "Genome Analysis"
    ],
    [
      "heading",
      "Genomics"
    ],
    [
      "heading",
      "Immune Activation"
    ],
    [
      "heading",
      "Immune Cells"
    ],
    [
      "heading",
      "Immune Response"
    ],
    [
      "heading",
      "Immunity"
    ],
    [
      "heading",
      "Immunology"
    ],
    [
      "heading",
      "Inflammation"
    ],
    [
      "heading",
      "Inflammatory Bowel Disease"
    ],
    [
      "heading",
      "Medicine and Health Sciences"
    ],
    [
      "heading",
      "Neutrophils"
    ],
    [
      "heading",
      "Research Article"
    ],
    [
      "heading",
      "Signs and Symptoms"
    ],
    [
      "heading",
      "Transcriptome Analysis"
    ],
    [
      "heading",
      "Ulcerative Colitis"
    ],
    [
      "heading",
      "White Blood Cells"
    ],
    [
      "openalex",
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    ],
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      "/Biology and life sciences/Anatomy/Digestive system/Gastrointestinal tract/Colon"
    ],
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    ],
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    ],
    [
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      "/Biology and life sciences/Genetics/Genomics/Genome analysis/Transcriptome analysis"
    ],
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    ],
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      "/Biology and life sciences/Immunology/Immune response/Inflammation"
    ],
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      "plos",
      "/Biology and life sciences/Immunology/Immunity/Immune activation"
    ],
    [
      "plos",
      "/Medicine and health sciences/Anatomy/Digestive system/Gastrointestinal tract/Colon"
    ],
    [
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      "/Medicine and health sciences/Clinical medicine/Signs and symptoms/Inflammation"
    ],
    [
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      "/Medicine and health sciences/Gastroenterology and hepatology/Inflammatory bowel disease"
    ],
    [
      "plos",
      "/Medicine and health sciences/Gastroenterology and hepatology/Inflammatory bowel disease/Colitis/Ulcerative colitis"
    ],
    [
      "plos",
      "/Medicine and health sciences/Immunology/Immune cells/White blood cells/Neutrophils"
    ],
    [
      "plos",
      "/Medicine and health sciences/Immunology/Immune response/Inflammation"
    ],
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      "plos",
      "/Medicine and health sciences/Immunology/Immunity/Immune activation"
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  "pdf_url": "https://europepmc.org/articles/PMC13726911?pdf=render",
  "pmcid": "PMC13726911",
  "pmid": "42970534",
  "published": "2026-11-02",
  "publisher": "Public Library of Science",
  "ris": "https://research.draconitic.com/paper/awtam0yg1pytm.ris",
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  "subjects": [
    {
      "field": "biochemistry",
      "origin": "heading:Gene Expression",
      "subfield": "molecular-biology"
    },
    {
      "field": "biology",
      "origin": "heading:Computational Biology",
      "subfield": "bioinformatics"
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      "field": "biology",
      "origin": "heading:Cell Biology",
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      "origin": "heading:Anatomy",
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  "title": "A mucosal barrier injury related six gene transcriptomic signature associated with ulcerative colitis using machine learning and public transcriptomic data",
  "title_text": "A mucosal barrier injury related six gene transcriptomic signature associated with ulcerative colitis using machine learning and public transcriptomic data",
  "type": "peer-reviewed",
  "updated_at": "2026-11-06T12:22:44Z",
  "url": "https://research.draconitic.com/paper/awtam0yg1pytm",
  "venue": "PLOS One",
  "versions": []
}