Identification of Prognostic Related Hub Genes in Clear-Cell Renal Cell Carcinoma via Bioinformatical Analysis

Identification of Prognostic Related Hub Genes in Clear-Cell Renal Cell Carcinoma via Bioinformatical Analysis

To identify new genes that correlate with prognosis of clear-cell renal cell carcinoma (ccRCC) via bioinformatics analysis. The gene expression profiles of 62 ccRCC and 54 normal kidney tissues were available from the Gene Expression Omnibus database: GSE12606, GSE36895 and GSE66272. The differentia...

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Veröffentlicht in:Chinese medical sciences journal 2021-06, Vol.36 (2), p.127-134
Hauptverfasser: Jiang, Ping, Sun, Taotao, Chen, Cunwu, Huang, Renshu, Zhong, Zhimei, Lou, Xinjian, Liu, Gang, Wang, Lin, Zuo, Ruihua
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bioinformatical analysis
clear-cell renal cell carcinoma
differentially expressed genes
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container_end_page 134
container_issue 2
container_start_page 127
container_title Chinese medical sciences journal
container_volume 36
creator Jiang, Ping
Sun, Taotao
Chen, Cunwu
Huang, Renshu
Zhong, Zhimei
Lou, Xinjian
Liu, Gang
Wang, Lin
Zuo, Ruihua
description To identify new genes that correlate with prognosis of clear-cell renal cell carcinoma (ccRCC) via bioinformatics analysis. The gene expression profiles of 62 ccRCC and 54 normal kidney tissues were available from the Gene Expression Omnibus database: GSE12606, GSE36895 and GSE66272. The differentially expressed genes were screened with GE02R and J Venn online tools. Functional annotation including Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) was applied to identify the possible function of the hub genes involved in prognosis of ccRCC. In protein protein interaction network (PPI network), the STRING online tool was used to visualize the network of the differentially expressed genes, and the core gene was selected by MCODE App in Cytoscape software. Finally, GEPIA Survival Plot was performed to assess genes associated with worse survival. We totally found 648 differentially expressed genes, including 222 up-regulated genes and 426 down-regulated genes. PPI network showed that in 28 up-regulated genes 7 (CCNE2, CDK1, CDC6, CCNB2, BUB1, TTK and PTTG1) enriched in cell cycle and 4 genes (CCNE2, CDK1, CCNB2 and RRM2) enriched in p53 signaling pathway. GEPIA Survival Plot assay revealed that ccRCC patients carrying CDK1, CCNB2, RRM2, BUB1, and PTTG1 had a worse survival. GEPIA Box Plot showed that BUB1, CCNB2, PTTG1, and RRM2 were over expressed in the ccRCC tissues in contrast to the normal tissues (P
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The gene expression profiles of 62 ccRCC and 54 normal kidney tissues were available from the Gene Expression Omnibus database: GSE12606, GSE36895 and GSE66272. The differentially expressed genes were screened with GE02R and J Venn online tools. Functional annotation including Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) was applied to identify the possible function of the hub genes involved in prognosis of ccRCC. In protein protein interaction network (PPI network), the STRING online tool was used to visualize the network of the differentially expressed genes, and the core gene was selected by MCODE App in Cytoscape software. Finally, GEPIA Survival Plot was performed to assess genes associated with worse survival. We totally found 648 differentially expressed genes, including 222 up-regulated genes and 426 down-regulated genes. PPI network showed that in 28 up-regulated genes 7 (CCNE2, CDK1, CDC6, CCNB2, BUB1, TTK and PTTG1) enriched in cell cycle and 4 genes (CCNE2, CDK1, CCNB2 and RRM2) enriched in p53 signaling pathway. GEPIA Survival Plot assay revealed that ccRCC patients carrying CDK1, CCNB2, RRM2, BUB1, and PTTG1 had a worse survival. GEPIA Box Plot showed that BUB1, CCNB2, PTTG1, and RRM2 were over expressed in the ccRCC tissues in contrast to the normal tissues (P&lt;0.05). ccRCC patients with the four up-regulated differentially expressed genes including BUB1, CCNB2, PTTG1, and RRM2 might manifest a poor prognosis.</description><identifier>ISSN: 1001-9294</identifier><identifier>DOI: 10.24920/003651</identifier><language>eng</language><publisher>Elsevier B.V</publisher><subject>bioinformatical analysis ; clear-cell renal cell carcinoma ; differentially expressed genes</subject><ispartof>Chinese medical sciences journal, 2021-06, Vol.36 (2), p.127-134</ispartof><rights>2021 Chinese Academy Medical Sciences</rights><rights>Copyright © Wanfang Data Co. Ltd. All Rights Reserved.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Uhttp://www.wanfangdata.com.cn/images/PeriodicalImages/cmsj-e/cmsj-e.jpg</thumbnail><link.rule.ids>314,780,784,27924,27925</link.rule.ids></links><search><creatorcontrib>Jiang, Ping</creatorcontrib><creatorcontrib>Sun, Taotao</creatorcontrib><creatorcontrib>Chen, Cunwu</creatorcontrib><creatorcontrib>Huang, Renshu</creatorcontrib><creatorcontrib>Zhong, Zhimei</creatorcontrib><creatorcontrib>Lou, Xinjian</creatorcontrib><creatorcontrib>Liu, Gang</creatorcontrib><creatorcontrib>Wang, Lin</creatorcontrib><creatorcontrib>Zuo, Ruihua</creatorcontrib><creatorcontrib>1皖西学院生物与制药工程学院,安徽,六安 237012 College of Biological and Pharmaceutical Engineering, West Anhui University, Lu’an 237012, Anhui, China</creatorcontrib><creatorcontrib>2安徽省中药资源保护与持续利用工程实验室,安徽,六安 237012 Anhui Engineering Laboratory for Conservation and Sustainable Utilization of Traditional Chinese Medicine Resources, Lu’an 237012, Anhui, China</creatorcontrib><title>Identification of Prognostic Related Hub Genes in Clear-Cell Renal Cell Carcinoma via Bioinformatical Analysis</title><title>Chinese medical sciences journal</title><description>To identify new genes that correlate with prognosis of clear-cell renal cell carcinoma (ccRCC) via bioinformatics analysis. 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PPI network showed that in 28 up-regulated genes 7 (CCNE2, CDK1, CDC6, CCNB2, BUB1, TTK and PTTG1) enriched in cell cycle and 4 genes (CCNE2, CDK1, CCNB2 and RRM2) enriched in p53 signaling pathway. GEPIA Survival Plot assay revealed that ccRCC patients carrying CDK1, CCNB2, RRM2, BUB1, and PTTG1 had a worse survival. GEPIA Box Plot showed that BUB1, CCNB2, PTTG1, and RRM2 were over expressed in the ccRCC tissues in contrast to the normal tissues (P&lt;0.05). ccRCC patients with the four up-regulated differentially expressed genes including BUB1, CCNB2, PTTG1, and RRM2 might manifest a poor prognosis.</description><subject>bioinformatical analysis</subject><subject>clear-cell renal cell carcinoma</subject><subject>differentially expressed genes</subject><issn>1001-9294</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2021</creationdate><recordtype>article</recordtype><recordid>eNplkE9LxDAQxXtQcP2DXyE3vVQnadpuj2tRV1hQRM9hmk6WLG2yJl3Fb290BQ-eZuD95jHvZdk5hyshGwHXAEVV8oNsxgF43ohGHmXHMW4AoOJzOcvcQ09ussZqnKx3zBv2FPza-ThZzZ5pwIl6ttx17J4cRWYdawfCkLc0DEl3OLCftcWgrfMjsneL7MZ664wPY3LVCVkk7jPaeJodGhwinf3Ok-z17valXearx_uHdrHKtZCizruSBJLuqmoOVVlIw7mWRdU3BYo5l1AbhIZXqDtTl-UchJDYJKXusTDYdcVJdrH3_UBn0K3Vxu9C-iEqPcaNIgGCgwCoE3m5J7fBv-0oTmq0UadE6MjvohLld5EVSPgz1cHHGMiobbAjhk_FQf30rfZ9J5LvSUoZ3y0FFbUlp6m3gfSkem__3XwBTNKDFA</recordid><startdate>20210601</startdate><enddate>20210601</enddate><creator>Jiang, Ping</creator><creator>Sun, Taotao</creator><creator>Chen, Cunwu</creator><creator>Huang, Renshu</creator><creator>Zhong, Zhimei</creator><creator>Lou, Xinjian</creator><creator>Liu, Gang</creator><creator>Wang, Lin</creator><creator>Zuo, Ruihua</creator><general>Elsevier B.V</general><general>Anhui Engineering Laboratory for Conservation and Sustainable Utilization of Traditional Chinese Medicine Resources,Lu'an 237012,Anhui,China%College of Biological and Pharmaceutical Engineering,West Anhui University,Lu'an 237012,Anhui,China</general><general>College of Biological and Pharmaceutical Engineering,West Anhui University,Lu'an 237012,Anhui,China</general><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>2B.</scope><scope>4A8</scope><scope>92I</scope><scope>93N</scope><scope>PSX</scope><scope>TCJ</scope></search><sort><creationdate>20210601</creationdate><title>Identification of Prognostic Related Hub Genes in Clear-Cell Renal Cell Carcinoma via Bioinformatical Analysis</title><author>Jiang, Ping ; 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The gene expression profiles of 62 ccRCC and 54 normal kidney tissues were available from the Gene Expression Omnibus database: GSE12606, GSE36895 and GSE66272. The differentially expressed genes were screened with GE02R and J Venn online tools. Functional annotation including Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) was applied to identify the possible function of the hub genes involved in prognosis of ccRCC. In protein protein interaction network (PPI network), the STRING online tool was used to visualize the network of the differentially expressed genes, and the core gene was selected by MCODE App in Cytoscape software. Finally, GEPIA Survival Plot was performed to assess genes associated with worse survival. We totally found 648 differentially expressed genes, including 222 up-regulated genes and 426 down-regulated genes. PPI network showed that in 28 up-regulated genes 7 (CCNE2, CDK1, CDC6, CCNB2, BUB1, TTK and PTTG1) enriched in cell cycle and 4 genes (CCNE2, CDK1, CCNB2 and RRM2) enriched in p53 signaling pathway. GEPIA Survival Plot assay revealed that ccRCC patients carrying CDK1, CCNB2, RRM2, BUB1, and PTTG1 had a worse survival. GEPIA Box Plot showed that BUB1, CCNB2, PTTG1, and RRM2 were over expressed in the ccRCC tissues in contrast to the normal tissues (P&lt;0.05). ccRCC patients with the four up-regulated differentially expressed genes including BUB1, CCNB2, PTTG1, and RRM2 might manifest a poor prognosis.</abstract><pub>Elsevier B.V</pub><doi>10.24920/003651</doi><tpages>8</tpages><oa>free_for_read</oa></addata></record>
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subjects bioinformatical analysis
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differentially expressed genes
title Identification of Prognostic Related Hub Genes in Clear-Cell Renal Cell Carcinoma via Bioinformatical Analysis
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