In silico biomarker prediction for clear cell renal cell carcinoma

Background and Aim: Renal cell carcinoma (RCC) is the most common kidney malignancy in adults, accounting for approximately ۹۵% of kidney cancers. early detection of clear cell renal cell carcinoma(ccRCC) form was poor. accurate identification of biomarkers helps in improving the prognosis and early detection of ccRCC. The aim of this study is to find the genes that are involved in clear cell carcinoma’s pathways by using bioinformatics analysis.Methods: Twenty-three datasets were extracted from Gene Expression Omnibus (GEO) database, Finally, eighteen GSEs could be analyzed and the data available. GEO۲R tool was used to identify the differentially expressed genes (DEGs) between renal cell carcinoma compared with tumor’s adjacent normal tissues. we explored the common DEGs in ۱۳ from ۱۸ GSEs. https://string-db.org/ database and cystoscope software were used to drawing protein-protein interaction (PPI) network. The Hub genes were identified by using ; closeness, betweenness, eigenvector, and degree centrality measurements. Next, survival analysis was obtained from www.cbioportal.org database.Results: A total of ten Hubs such as EGFR, MYC, EGF, CYCS, UBC, VEGFA, FN۱, MAPK۱, CCND۱ and ERBB۲ were selected. Three important Hubs were identified with significant difference in survival in ccRCC patients which were CCND۱(P=۲.۵e-۰۵), ERBB۲(P=۵.۵e-۰۹), and CYCS(P=۰.۰۲۵). We checking validation of these genes by searching in pubmed and found that Expression of these as a prognostic and predictive biomarker is validated by experimental studies such as Real-time PCR, tissue microarray and western blot.Conclusion: A set of tissue’s biomarkers identified using a systems biology approach that these associated with a decrease in survival. Studies have shown that mentioned biomarkers are effective in early diagnosis of RCC. CCND۱ functions as regulators of CDK kinases, CYCS encodes a small heme protein that functions as a central component of electron transport chain in mitochondria.

کلیدواژه ها:

clear cell renal cell carcinoma ، bioinformatics analysis ، Network ، Biomarker ، systems biology.