TYROBP as a molecular target in cholangiocarcinoma, renal cancer and abdominal aortic aneurysm.

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However, the relationship between TYROBP and cholangiocarcinoma, renal cancer and AAA remains unclear. The profiles of cholangiocarcinoma dataset GSE107943, renal cell carcinoma dataset GSE213324, and AAA dataset GSE47472 were downloaded from the GEO database using the platforms GPL18573, GPL24676, and GPL10558. DEGs were screened, WGCNA was performed as well as construction and analysis of PPI network. Functional enrichment analysis, GSEA, heat map of gene expression, survival analysis, and immune infiltration analysis were performed. The most relevant diseases to core genes were found by CTD. The GSE107943 dataset identified 3383 DEGs for cholangiocarcinoma, GSE47472 identified 95 DEGs for abdominal aortic aneurysm, and GSE213324 identified 10245 DEGs for renal cell carcinoma. For the GSE107943 cholangiocarcinoma dataset, GO analysis revealed enrichment in immune response, cell adhesion, extracellular space, and oxidoreductase activity. KEGG analysis indicated enrichment in metabolic pathways, the PI3K-Akt signaling pathway, cell apoptosis, the cell cycle, and the NF-kappa B signaling pathway. In the GSE47472 AAA dataset, GO analysis showed enrichment in neuroblast differentiation, cardiac muscle myofilament complex, and alkaline binding. KEGG analysis indicated enrichment in mRNA surveillance pathway and purine metabolism. In the GSE213324 renal cell carcinoma dataset, GO analysis indicated enrichment in immune system processes, cell adhesion, and membrane parts. KEGG analysis showed enrichment in cytokine-cytokine receptor interaction, calcium signaling pathway, and hematopoietic cell lineage. Furthermore, for cholangiocarcinoma (GSE107943), enriched terms associated with DEGs were in metabolic pathways, cell apoptosis, and the cell cycle. For AAA (GSE47472), enriched terms were in alkaline binding and cellular redox homeostasis. For renal cell carcinoma (GSE213324), enriched terms were in biological adhesion, regulation of immune system processes, and cell surface. Common core genes (ADH6, AGXT, CYP3A43, TYROBP) were identified for cholangiocarcinoma, renal cell carcinoma, and AAA. ADH6 and TYROBP were associated with cholangiocarcinoma, AAA, renal tumors, kidney diseases, atherosclerosis, and inflammation. TYROBP is abnormally expressed in cholangiocarcinoma, renal cancer and abdominal aortic aneurysm.", "claims": [{"id": "claim-method", "statement": "Probe aggregation and background correction of merge matrix using R package “limma.” P value were adjusted using Benjamini-Hochberg method. The multiple change (FC) is calculated using error detection rate (FDR). The cutoff value of DEG is P less than .05 and FC is greater than 1.5.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:38181271", "locator": "sections[4] \"2.2. Differentially expressed genes (DEGs) were screened\" paragraph 2", "quote": "Probe aggregation and background correction of merge matrix using R package “limma.” P value were adjusted using Benjamini-Hochberg method. The multiple change (FC) is calculated using error detection rate (FDR). The cutoff value of DEG is P less than .05 and FC is greater than 1.5."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The datasets generated during and/or analyzed during the current study are available from the corresponding author on reasonable request.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:38181271", "locator": "sections[29] \"fn-group\" paragraph 1", "quote": "The datasets generated during and/or analyzed during the current study are available from the corresponding author on reasonable request."}], "state": "complete"}, {"id": "claim-target-result", "statement": "TYROBP is abnormally expressed in cholangiocarcinoma, renal cancer and abdominal aortic aneurysm.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:38181271", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "TYROBP is abnormally expressed in cholangiocarcinoma, renal cancer and abdominal aortic aneurysm."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "TYROBP is abnormally expressed in cholangiocarcinoma, renal cancer and abdominal aortic aneurysm.", "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:38181271"], "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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