Integrated analysis of metastasis-related circRNA-miRNA-mRNA ceRNA regulatory network involved in breast cancer.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:41319483", "kind": "science-record", "revision": 3, "content_hash": "sha256:ecd395bcf6ba252a90789ded29a384bc66f5457c9b982d516b693530e6b2f841", "created_at": "2026-11-01T20:31:20Z", "updated_at": "2026-11-01T22:15:05Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Integrated analysis of metastasis-related circRNA-miRNA-mRNA ceRNA regulatory network involved in breast cancer.", "doi": "10.1016/j.clinsp.2025.100826", "pmid": "41319483", "authors": ["Hongming Song", "Mingkai Gong", "Wenfeng Li", "Chen Liu", "Haiyan Hu", "Zhongliang Ma", "Xiangping Liu", "Yuanxiang Wang", "Bing Du", "Haibo Wang"], "journal": "Clinics (Sao Paulo, Brazil)", "year": 2025, "abstract": "STUDY GUIDELINES: This study followed the STROBE Statement.\nBACKGROUND: Breast cancer persists as a major cause of cancer-related mortality among women.\nMETHODS: The expression data of circRNA (GSE101123, GSE111504, GSE182471, GSE165884), miRNA (GSE154255), and mRNA (GSE52194) in breast cancer were downloaded from the GEO databases. The sponge miRNA and mRNA corresponding to the DEcircRNA were predicted through CircInteractome, circBank databases, and StarBase. The enrichment and annotation of all the miRNAs were analyzed through the miEAA database. The circRNA-related ceRNA network of breast cancer was constructed by the STRING database and Cytoscape software. DAVID database was used to analyze the GO and KEGG enrichment of DEmRNAs. RT-qPCR, StarBase database, and GEPIA database were utilized to validate the expression of hsa_circ_0089131, miR-378a-3p, and TP53 in breast cancer.\nRESULTS: The four circRNA-associated GEO databases overlapped two metastasis-related DEcircRNAs, including hsa_circ_0001936 and hsa_circ_0089131. After the enrichment and annotation of all the DEcircRNA-related miRNAs overlapped with GSE154255, a total of 60 breast cancer-associated miRNAs were obtained. Finally, the ceRNA network with 2 circRNAs, 44 miRNAs, and 122 mRNAs was constructed and visualized. The breast cancer-related mRNAs are enriched in various pathways, especially AKT/PI3K and MAPK signaling pathways. The expression of hsa_circ_0089131 (upregulated), miR-378a-3p (downregulated), and TP53 (upregulated) was validated in breast cancer tissues and showed a correlation.\nCONCLUSION: The ceRNA regulatory network related to the metastasis and prognosis of breast cancer was constructed, which included hsa_circ_0089131, miR-378a-3p, and TP53. This study provides a bioinformatics basis for elucidating the molecular mechanism of metastasis and the prognosis of breast cancer.", "claims": [{"id": "claim-method", "statement": "The interactive web tool GEO2R, based on R packages was utilized to identify DEcircRNAs, DEmiRNAs, and DEmRNAs in breast cancer.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:41319483", "locator": "sections[3] \"Identification of metastasis breast cancer-related microarray profiles\" paragraph 4", "quote": "The interactive web tool GEO2R, based on R packages was utilized to identify DEcircRNAs, DEmiRNAs, and DEmRNAs in breast cancer."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Data Availability: The datasets generated and/or analyzed during the current study are available from the corresponding author upon reasonable request.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:41319483", "locator": "sections[23] \"(untitled)\" paragraph 1", "quote": "Data Availability: The datasets generated and/or analyzed during the current study are available from the corresponding author upon reasonable request."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The four circRNA-associated GEO databases overlapped two metastasis-related DEcircRNAs, including hsa_circ_0001936 and hsa_circ_0089131.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:41319483", "locator": "sections[0] \"Abstract\" paragraph 8", "quote": "The four circRNA-associated GEO databases overlapped two metastasis-related DEcircRNAs, including hsa_circ_0001936 and hsa_circ_0089131."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "The four circRNA-associated GEO databases overlapped two metastasis-related DEcircRNAs, including hsa_circ_0001936 and hsa_circ_0089131.", "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:41319483"], "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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