{
  "abstract": "Backgroud: This study explored the molecular mechanisms by which dibutyl phthalate (DBP) contributes to hepatocellular carcinoma (HCC) pathogenesis using integrated network toxicology and bioinformatics. Methods: DBP’s carcinogenic potential was evaluated with ADMETLAB 3.0 and ProTox3. DBP-related targets were obtained from ChEMBL, SwissTargetPrediction, and PharmMapper; HCC-related targets from GeneCards and OMIM. Overlapping genes were identified by Venn analysis. A protein-protein interaction (PPI) network was constructed using STRING and analyzed with Cytoscape to identify hub genes. Functional enrichment analysis (GO/KEGG) was performed with DAVID. Expression validation and survival analysis used TCGA-LIHC and GEO (GSE39791) data. A prognostic nomogram integrating gene expression and clinical variables was developed. Single-cell RNA sequencing (GSE299340) was analyzed with Seurat to examine hub gene expression. Molecular docking and dynamics simulations investigated DBP interactions with core targets. Results: A total of 242 overlapping genes between DBP-associated and HCC-associated targets were identified. PPI network analysis revealed seven hub genes: KRAS, GRB2, ESR1, HSP90AA1, SRC, EGFR, and TP53. Enrichment analysis indicated significant involvement in cancer-related pathways. Expression analysis in TCGA and GEO datasets confirmed significant dysregulation of GRB2, ESR1, HSP90AA1, and SRC in HCC tissues, which correlated with patient survival outcomes. The prognostic model incorporating these genes showed good predictive accuracy. Single-cell analysis indicated distinct expression patterns of ESR1 (hepatocytes) and HSP90AA1 (immune cells) in HCC. Molecular docking demonstrated stable binding of DBP to ESR1 and HSP90AA1 with favorable binding energies (−6.8 and −6.1 kcal/mol, respectively). Molecular dynamics simulations supported the stability of these complexes, with van der Waals interactions being the primary binding force. Conclusions: This integrative analysis suggests that DBP exposure may contribute to HCC pathogenesis by modulating core genes and pathways, although these findings are associative and require experimental confirmation. Hub genes, especially ESR1 and HSP90AA1, are potential biomarkers and targets. Direct DBP-protein interactions provide mechanistic insights into HCC etiology.",
  "abstract_shown": true,
  "affiliations": [
    "Department of General Surgery, The First Affiliated Hospital of Anhui Medical University, Hefei, Anhui, China.",
    "Department of General Surgery, The First Affiliated Hospital of Wannan Medical College (Yijishan Hospital of Wannan Medical College), Wuhu, Anhui, China."
  ],
  "article_type": "Research Article",
  "arxiv": null,
  "author_total": 4,
  "authors": [
    {
      "affs": [
        0,
        1
      ],
      "name": "Dafei Dai",
      "orcid": "0000-0002-2204-8393"
    },
    {
      "affs": [
        0,
        1
      ],
      "name": "Nianzhao Yang"
    },
    {
      "affs": [
        0
      ],
      "name": "Fubao Liu"
    },
    {
      "affs": [
        1
      ],
      "name": "Xiaopeng Chen"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/58ndfqcqpj5j3.bib",
  "cited_by": 0,
  "doi": "10.1371/journal.pone.0359516",
  "fulltext_url": "https://europepmc.org/articles/PMC13716223",
  "id": "58ndfqcqpj5j3",
  "issns": [
    "1932-6203"
  ],
  "landing_url": "https://doi.org/10.1371/journal.pone.0359516",
  "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",
      "Biochemical Simulations"
    ],
    [
      "heading",
      "Biochemistry"
    ],
    [
      "heading",
      "Biology and Life Sciences"
    ],
    [
      "heading",
      "Cancer Risk Factors"
    ],
    [
      "heading",
      "Cancers and Neoplasms"
    ],
    [
      "heading",
      "Carcinoma"
    ],
    [
      "heading",
      "Chemical Compounds"
    ],
    [
      "heading",
      "Chemistry"
    ],
    [
      "heading",
      "Computational Biology"
    ],
    [
      "heading",
      "Computational Chemistry"
    ],
    [
      "heading",
      "Epidemiology"
    ],
    [
      "heading",
      "Gastroenterology and Hepatology"
    ],
    [
      "heading",
      "Gastrointestinal Tumors"
    ],
    [
      "heading",
      "Gene Expression"
    ],
    [
      "heading",
      "Genetics"
    ],
    [
      "heading",
      "Hepatocellular Carcinoma"
    ],
    [
      "heading",
      "Liver Diseases"
    ],
    [
      "heading",
      "Medical Risk Factors"
    ],
    [
      "heading",
      "Medicine and Health Sciences"
    ],
    [
      "heading",
      "Molecular Docking"
    ],
    [
      "heading",
      "Molecular Dynamics"
    ],
    [
      "heading",
      "Oncology"
    ],
    [
      "heading",
      "Pathology and Laboratory Medicine"
    ],
    [
      "heading",
      "Phthalates"
    ],
    [
      "heading",
      "Physical Sciences"
    ],
    [
      "heading",
      "Research Article"
    ],
    [
      "heading",
      "Toxicity"
    ],
    [
      "heading",
      "Toxicology"
    ],
    [
      "openalex",
      "1703|Computational Drug Discovery Methods"
    ],
    [
      "plos",
      "/Biology and life sciences/Biochemistry/Biochemical simulations"
    ],
    [
      "plos",
      "/Biology and life sciences/Computational biology/Biochemical simulations"
    ],
    [
      "plos",
      "/Biology and life sciences/Genetics/Gene expression"
    ],
    [
      "plos",
      "/Biology and life sciences/Toxicology/Toxicity"
    ],
    [
      "plos",
      "/Computer and information sciences/Network analysis/Centrality"
    ],
    [
      "plos",
      "/Medicine and health sciences/Epidemiology/Medical risk factors/Cancer risk factors"
    ],
    [
      "plos",
      "/Medicine and health sciences/Gastroenterology and hepatology/Liver diseases/Hepatocellular carcinoma"
    ],
    [
      "plos",
      "/Medicine and health sciences/Oncology/Cancer risk factors"
    ],
    [
      "plos",
      "/Medicine and health sciences/Oncology/Cancers and neoplasms/Carcinoma/Hepatocellular carcinoma"
    ],
    [
      "plos",
      "/Medicine and health sciences/Oncology/Cancers and neoplasms/Gastrointestinal tumors/Hepatocellular carcinoma"
    ],
    [
      "plos",
      "/Medicine and health sciences/Pathology and laboratory medicine/Toxicology/Toxicity"
    ],
    [
      "plos",
      "/Physical sciences/Chemistry/Computational chemistry/Molecular docking"
    ],
    [
      "plos",
      "/Physical sciences/Chemistry/Computational chemistry/Molecular dynamics"
    ]
  ],
  "openalex": "W7224079731",
  "pdf_url": "https://europepmc.org/articles/PMC13716223?pdf=render",
  "pmcid": "PMC13716223",
  "pmid": "42949901",
  "published": "2026-10-28",
  "publisher": "Public Library of Science",
  "ris": "https://research.draconitic.com/paper/58ndfqcqpj5j3.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:17:17Z",
      "native_id": "10.1371/journal.pone.0359516",
      "source": "plos",
      "url": "https://doi.org/10.1371/journal.pone.0359516"
    },
    {
      "first_seen": "2026-10-31T00:20:33Z",
      "native_id": "MED:42949901",
      "source": "europepmc",
      "url": "https://europepmc.org/article/MED/42949901"
    },
    {
      "first_seen": "2026-11-01T12:23:16Z",
      "native_id": "PMC13716223",
      "source": "pmc",
      "url": "https://doi.org/10.1371/journal.pone.0359516"
    }
  ],
  "subjects": [
    {
      "field": "biology",
      "origin": "heading:Computational Biology",
      "subfield": "bioinformatics"
    },
    {
      "field": "chemistry",
      "origin": "plos:computational chemistry",
      "subfield": "theoretical"
    },
    {
      "field": "medicine",
      "origin": "heading:Epidemiology",
      "subfield": "epidemiology-public-health"
    },
    {
      "field": "medicine",
      "origin": "plos:oncology",
      "subfield": "oncology"
    },
    {
      "field": "medicine",
      "origin": "plos:toxicology",
      "subfield": "pharmacology-toxicology"
    }
  ],
  "title": "Elucidating the toxicogenomic mechanisms of DBP exposure on Hepatocellular carcinoma through network toxicology and molecular docking analysis",
  "title_text": "Elucidating the toxicogenomic mechanisms of DBP exposure on Hepatocellular carcinoma through network toxicology and molecular docking analysis",
  "type": "peer-reviewed",
  "updated_at": "2026-11-01T12:23:16Z",
  "url": "https://research.draconitic.com/paper/58ndfqcqpj5j3",
  "venue": "PLOS One",
  "versions": []
}