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Co-expression network analysis identified six hub genes in association with progression and prognosis in human clear cell renal cell carcinoma (ccRCC)

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5683669.pdf (1.31 MB)

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2017

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10.1016/j.gdata.2017.10.006

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Elsevier
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Yuan, Lushun, Liang Chen, Kaiyu Qian, Guofeng Qian, Chin-Lee Wu, Xinghuan Wang, and Yu Xiao. 2017. “Co-expression network analysis identified six hub genes in association with progression and prognosis in human clear cell renal cell carcinoma (ccRCC).” Genomics Data 14 (1): 132-140. doi:10.1016/j.gdata.2017.10.006. http://dx.doi.org/10.1016/j.gdata.2017.10.006.

Abstract

Human clear cell renal cell carcinoma (ccRCC) is one of the most common types of malignant adult kidney tumors. We constructed a weighted gene co-expression network to identify gene modules associated with clinical features of ccRCC (n = 97). Six hub genes (CCNB2, CDC20, CEP55, KIF20A, TOP2A and UBE2C) were identified in both co-expression and protein-protein interaction (PPI) networks, which were highly correlated with pathologic stage. The significance of expression of the hub genes in ccRCC was ranked top 4 among all cancers and correlated with poor prognosis. Functional analysis revealed that the hub genes were significantly enriched in cell cycle regulation and cell division. Gene set enrichment analysis suggested that the samples with highly expressed hub gene were correlated with cell cycle and p53 signaling pathway. Taken together, six hub genes were identified to be associated with progression and prognosis of ccRCC, and they might lead to poor prognosis by regulating p53 signaling pathway.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5683669/pdf/

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ccRCC, clear cell renal cell carcinoma, HPA, human protein atlas, GSEA, enrichment analysis and gene set enrichment, WGCNA, weighted gene co-expression network analysis, TCGA, the cancer genome atlas, DEGs, differentially expressed genes, TOM, topological overlap matrix, MEs, module eigengenes, GS, gene significance, MS, module significance, STRING, search tool for the retrieval of interacting genes, PPI, protein-protein interaction, DAVID, Database for Annotation, Visualization and Integrated Discovery, DEG, differentially expressed gene, SAM, significance analysis of microarrays, Clear cell renal cell carcinoma (ccRCC), Co-expression network analysis, Hub genes, Progression, Prognosis

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http://nrs.harvard.edu/urn-3:HUL.InstRepos:34492882

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