Integrative analysis of ferroptosis-related genes in ulcerative colitis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:34510961", "kind": "science-record", "revision": 8, "content_hash": "sha256:3707286025d1ba8125b73c6c1a819b0a908e3e410761dc139ab6228611b8f930", "created_at": "2026-11-01T15:41:51Z", "updated_at": "2026-11-01T22:04:41Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Integrative analysis of ferroptosis-related genes in ulcerative colitis.", "doi": "10.1177/03000605211042975", "pmid": "34510961", "authors": ["De-Jun Cui", "Chen Chen", "Wen-Qiang Yuan", "Yun-Han Yang", "Lu Han"], "journal": "The Journal of international medical research", "year": 2021, "abstract": "OBJECTIVE: The aim of this study was to identify and validate ferroptosis-related markers in ulcerative colitis (UC) to explore new directions for UC diagnosis and treatment.\nMETHODS: We screened UC chips and ferroptosis-related genes from the Gene Expression Omnibus (GEO), FerrDb, and GeneCards databases. The differentially expressed genes (DEGs) and ferroptosis-related DEGs between the UC group and normal controls were analyzed using bioinformatics methods. Enrichment analysis, protein-protein interaction analysis, and hub genes were screened. Peripheral blood chip and animal experiments were used to validate the ferroptosis-related hub genes. Finally, hub gene-transcription factor, hub gene-microRNA (miRNA), and hub gene-drug interaction networks were constructed.\nRESULTS: Overall, 26 ferroptosis-related DEGs were identified that were significantly enriched in energy pathways and metabolism. We identified ten ferroptosis-related hub genes from the protein-protein interaction network: IL6, PTGS2, HIF1A, CD44, MUC1, CAV1, NOS2, CXCL2, SCD, and ACSL4. In the peripheral blood chip GSE94648, CD44 and MUC1 were upregulated, which was consistent with the expression trend in GSE75214. Animal experiments showed that CD44 expression was significantly increased in the colon.\nCONCLUSIONS: Our findings indicate that CD44 and MUC1 may be ferroptosis-related markers in UC.", "claims": [{"id": "claim-method", "statement": "The statistical method used was an unpaired t test, and differences were considered statistically significant with P-values <0.05.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:34510961", "locator": "sections[7] \"Validation of hub genes\" paragraph 2", "quote": "The statistical method used was an unpaired t test, and differences were considered statistically significant with P-values <0.05."}], "state": "complete"}, {"id": "claim-data-access", "statement": "GSE75214, containing mucosal gene expression profiling of the colon, included 97 UC patients and 11 controls.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:34510961", "locator": "sections[11] \"Ferroptosis-related DEGs in UC\" paragraph 2", "quote": "GSE75214, containing mucosal gene expression profiling of the colon, included 97 UC patients and 11 controls."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": null, "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:34510961"], "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. This lane did not download the dataset or read its licence.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE75214"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "complete", "blocked_on": null, "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE75214"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:34510961", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1177/03000605211042975", "sha256": 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