Analysis of key genes and related transcription factors in liver fibrosis based on bioinformatic technology.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:33936366", "kind": "science-record", "revision": 4, "content_hash": "sha256:33995290810871f1da4f06fe3ee1174be4e8eab5949e8e58ee3cfb910e5c1513", "created_at": "2026-11-01T17:35:13Z", "updated_at": "2026-11-01T22:03:40Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "partial", "title": "Analysis of key genes and related transcription factors in liver fibrosis based on bioinformatic technology.", "doi": null, "pmid": "33936366", "authors": ["Xue Yang", "Qi-Ni Cheng", "Jiang-Feng Wu", "Wen-Bing Ai", "Lan Ma"], "journal": "International journal of clinical and experimental pathology", "year": 2021, "abstract": "OBJECTIVE: To analyze differentially expressed genes (DEGs) related to liver fibrosis, and clarify the key genes and the possible targets in the progression of liver fibrosis.\nMETHODS: Using microarray datasets, GSE38199 was extracted from Gene Expression Omnibus (GEO), and a bioinformatics method was performed to find DEGs and transcription factors related to liver fibrosis.\nRESULTS: A total of 58 DEGs were screened out according to GEO2R online analysis tool, which included 49 up-regulated and 9 down-regulated genes. These DEGs were mainly involved in formation with the extracellular region and extracellular exosome through gene ontology (GO) enrichment analysis. Kyoto Encyclopedia of Gene and Genome (KEGG) pathway enrichment analysis showed that DEGs mainly participated in the PI3K-Akt signaling pathway, focal adhesion, ECM-receptor interaction, and metabolic pathways. Based on the results of the Protein-Protein Interaction (PPI) network and Molecular Complex Detection (MCODE) analysis, 9 key genes (COL1A1, FBN1, BGN, COL6A3, MMP2, FBLN5, LUM, PDGFRB, LOXL1) were screened out. A total of 30 transcription factors were found according to these 9 key genes, of which 4 transcription factors (Stat3, Trp53, NF-κB1, Sp1) were enriched.\nCONCLUSION: Stat3, Trp53, NF-κB1, and Sp1 were all related to the development of liver fibrosis, and FBLN5 might be a target for liver fibrosis.", "claims": [{"id": "claim-method", "statement": "A total of 58 DEGs were screened out according to GEO2R online analysis tool, which included 49 up-regulated and 9 down-regulated genes.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:33936366", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "A total of 58 DEGs were screened out according to GEO2R online analysis tool, which included 49 up-regulated and 9 down-regulated genes."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Using microarray datasets, GSE38199 was extracted from Gene Expression Omnibus (GEO), and a bioinformatics method was performed to find DEGs and transcription factors related to liver fibrosis.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:33936366", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Using microarray datasets, GSE38199 was extracted from Gene Expression Omnibus (GEO), and a bioinformatics method was performed to find DEGs and transcription factors related to liver fibrosis."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Using microarray datasets, GSE38199 was extracted from Gene Expression Omnibus (GEO), and a bioinformatics method was performed to find DEGs and transcription factors related to liver fibrosis.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:33936366", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Using microarray datasets, GSE38199 was extracted from Gene Expression Omnibus (GEO), and a bioinformatics method was performed to find DEGs and transcription factors related to liver fibrosis."}], "state": "complete"}], "gaps": ["doi"]}, "experiment": {"state": "complete", "objective": "Using microarray datasets, GSE38199 was extracted from Gene Expression Omnibus (GEO), and a bioinformatics method was performed to find DEGs and transcription factors related to liver fibrosis.", "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:33936366"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. 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