Molecular mechanism of triple-negative breast cancer-associated BRCA1 and the identification of signaling pathways.

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By examining cell signaling pathways, important information for comprehending the potential mechanisms of this cancer may become known. The aim of the present study was to identify the effects of BRAC1 and to find the signaling pathway(s) involved in the pathogenic mechanism of triple-negative breast cancer. In this study, GSE27447 microarray data were obtained from the Gene Expression Omnibus (GEO) database of the National Center for Biotechnology Information, and differentially expressed genes (DEGs) from GSE27447 were distinguished by Significant Analysis of Microarray. Gene ontology (GO) analysis was carried out on 132 upregulated and 198 downregulated genes with DAVID. The signaling was forecast by the Kyoto Encyclopedia of Genes and Genomes (KEGG). Transcription factors were recognized by TFatS. The BRAC1 relevant protein-protein interaction networks (PPI) were fixed by STRING and visualized by CytoScape. Overall, the upregulated DEGs, which included CR2, IGHM, PRKCB, CARD11, PLCG2, CD79A, IGKC and CD27, were primarily enriched in the terms associated with immune responses, and the downregulated DEGs, which included STARD3, ALDH8A1, SRD5A3, CACNA1H, UGT2B4, SDR16C5 and MED1, were primarily enriched in the hormone metabolic process. In addition, 13 pathways, such as the B-cell receptor-signaling pathway, the hormone synthesis signaling pathway and the oxytocin-signaling pathway, were chosen. MYC, SP1 and CTNNB1 were determined to be enriched in triple-negative breast cancer. A total of 8 genes were identified to be downregulated in the BRAC1-related PPI network. The results of the present study show a fresh angle on the molecular mechanism of triple-negative breast cancer and indicate a possible target for its treatment.", "claims": [{"id": "claim-method", "statement": "differentially expressed genes (DEGs) from GSE27447 were distinguished by Significant Analysis of Microarray", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:30854067", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "differentially expressed genes (DEGs) from GSE27447 were distinguished by Significant Analysis of Microarray"}], "state": "complete"}, {"id": "claim-data-access", "statement": "In this study, GSE27447 microarray data were obtained from the Gene Expression Omnibus (GEO) database of the National Center for Biotechnology Information, and differentially expressed genes (DEGs) from GSE27447 were distinguished by Significant Analysis of Microarray.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:30854067", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "In this study, GSE27447 microarray data were obtained from the Gene Expression Omnibus (GEO) database of the National Center for Biotechnology Information, and differentially expressed genes (DEGs) from GSE27447 were distinguished by Significant Analysis of Microarray."}], "state": "complete"}, {"id": "claim-target-result", "statement": "GSE27447 microarray data were obtained from GEO, and 132 upregulated and 198 downregulated genes were distinguished using Significant Analysis of Microarray.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:30854067", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "In this study, GSE27447 microarray data were obtained from the Gene Expression Omnibus (GEO) database of the National Center for Biotechnology Information, and differentially expressed genes (DEGs) from GSE27447 were distinguished by Significant Analysis of Microarray."}, {"asset": "source:pmid:30854067", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Gene ontology (GO) analysis was carried out on 132 upregulated and 198 downregulated genes with DAVID."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "GSE27447 microarray data were obtained from GEO, and 132 upregulated and 198 downregulated genes were distinguished using Significant Analysis of Microarray.", "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:30854067"], "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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