Deciphering Immune-Associated Genes to Predict Survival in Clear Cell Renal Cell Cancer.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:31886185", "kind": "science-record", "revision": 7, "content_hash": "sha256:ae96a06e276cf61f5c3c37d10ec3a6e4b5aa4d430b27f452815b5a10f9115935", "created_at": "2026-11-01T15:40:54Z", "updated_at": "2026-11-01T22:01:08Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Deciphering Immune-Associated Genes to Predict Survival in Clear Cell Renal Cell Cancer.", "doi": "10.1155/2019/2506843", "pmid": "31886185", "authors": ["Daixing Hu", "Mi Zhou", "Xin Zhu"], "journal": "BioMed research international", "year": 2019, "abstract": "BACKGROUND: To elucidate the correlations between tumor microenvironment and clinical characteristics as well as prognosis in clear cell renal cell cancer (ccRCC) and investigate the immune-associated genes by a comprehensive analysis of The Cancer Genome Atlas (TCGA) database.\nMETHODS: We collected mRNA expression profiles of 537 ccRCC samples from the TCGA database. Immune scores and stromal scores were calculated by applying the ESTIMATE algorithm. We evaluated the correlation between immune/stromal scores and clinical characteristics as well as prognosis. The differentially expressed genes (DEGs) were screened between high immune/stromal score and low immune/stromal score groups by the cutoff of |log (fold change)| > 1, P value <0.05 by using package \"limma\" in R. Functional enrichment analysis was performed by DAVID, and the protein-protein interaction network of intersected DEGs between stromal score and immune score groups was conducted using the STRING database. The Kaplan-Meier method was used to explore DEGs with predictive values in overall survival, and the prognostic DEGs were further validated in a Gene Expression Omnibus (GEO) dataset GSE29609.\nRESULTS: A higher immune score was associated with T3/4 (vs. T1/2, P < 0.001), N1 (vs. N0, P=0.05), M1 (vs. M0, P=0.004), G3/4 (vs. G1/2, P < 0.001), advanced AJCC stage (P < 0.001), and shorter overall survival (P=0.04). Intersected DEGs between immune and stromal score groups were 48 upregulated and 47 downregulated genes, with 43 DEGs associated with overall survival in ccRCC. After validation by a cohort of 39 ccRCC cases with detailed follow-up information from GSE29609, six immune-associated DEGs including CASP5, HSD11B1, VSIG4, HMGCS2, HSD11B2, and OGDHL were demonstrated to be predictive of prognosis in ccRCC.\nCONCLUSIONS: Our study elucidated tight associations between immune score and clinical characteristics as well as prognosis in ccRCC. 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