Clear cell renal cell carcinoma (ccRCC) is a common genitourinary malignancy with high mortality. However, the molecular pathogenesis of ccRCC remains unclear and effective biomarkers for daily practice are still limited. Thus, we aimed to identify the potential crucial genes and pathways associated with carcinogenesis of ccRCC and further analyze the molecular mechanisms implicated in tumorigenesis. In the present study, expression proﬁles GSE 66270, GSE 53757, GSE 36895 and GSE 76351 were downloaded from GEO database, including 244 matched primary and adjacent normal tissues, furthermore, the level 3 RNAseq dataset (RNAseqV2 RSEM) of KIRC was also downloaded from The Cancer Genome Atlas (TCGA), which consist of 529 ccRCC tumors and 72 normal tissues. Then, differentially expressed genes (DEGs) and pathway enrichment were analyzed by using R software. A total of 129 up- and 123 down-regulated genes were identified, which were aberrantly expressed both in GEO and TCGA data. Secondly, Gene ontology (GO) analyses revealed that most of the DEGs were signiﬁcantly enriched in integral component of membrane, extracellular exosome, plasma membrane, cell adhesion and receptor binding. Signaling pathway analyses indicated that DEGs had common pathways in signal transduction, metabolism, and immune system. Thirdly, hub genes were identified with protein-protein interaction (PPI) network, including PTPRC, TGFB1, EGF, MYC, ITGB2, CTSS, FN1, CCL5, KNG1 and CD86. Additionally, sub-networks analyse was also performed by using MCODE plugin. In conclusion, the novel DEGs and pathways in ccRCC identified in this study may provide new insight into the underlying molecular mechanisms that facilitates RCC carcinogenesis. This article is protected by copyright. All rights reserved.
Journal of cellular biochemistry. 2017 Dec 11 [Epub ahead of print]
Erlin Song, Wenting Song, Minghua Ren, Li Xing, Wenjun Ni, Yongxiang Li, Mancheng Gong, Mingbo Zhao, Xin Ma, Xu Zhang, Ruihua An
Department of Urinary Surgery, First Affiliated Hospital of Harbin Medical University, Harbin, Heilongjiang, P. R. China., Heilongjiang Academy of Medical Sciences, Harbin, Heilongjiang, P. R. China., Department of Nephrology, First Affiliated Hospital of Harbin Medical University, Harbin, Heilongjiang, P. R. China., Department of Urology, The People's Hospital of Weifang, Weifang, Shandong, P. R. China., Department of Urology, The People's Hospital of Zhongshan, Zhongshan, Guangdong, P. R. China., Department of Urology, Chinese PLA General Hospital/Chinese PLA Medical Academy, Haiding district, Beijing, P. R. China.