Identification of Prognostic Related Hub Genes in Clear-Cell Renal Cell Carcinoma <italic style="font-style: italic">via</italic> Bioinformatical Analysis

Jiang Ping; Sun Taotao; Chen Cunwu; Huang Renshu; Zhong Zhimei; Lou Xinjian; Liu Gang; Wang Lin; Zuo Ruihua

doi:10.24920/003651

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

Chinese Medical Sciences Journal Vol. 36, Issue 2, Pages: 127-134(2021)

Original Article | Updated：2024-04-10

- Identification of Prognostic Related Hub Genes in Clear-Cell Renal Cell Carcinoma via Bioinformatical Analysis
- Affiliations：
  
  1College of Biological and Pharmaceutical Engineering, West Anhui University, Lu’an 237012, Anhui, China
  2Anhui Engineering Laboratory for Conservation and Sustainable Utilization of Traditional Chinese Medicine Resources, Lu’an 237012, Anhui, China
- Author bio：
  
  *Tel: 86-13516482068, E-mail: 646923623@qq.com
- Funds：
- DOI：10.24920/003651
  CLC：
- Received：02 August 2020，
  
  Published Online：25 December 2020，
  
  Published：30 June 2021
- Accepted：
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Jiang Ping, Sun Taotao, Chen Cunwu, et al. Identification of Prognostic Related Hub Genes in Clear-Cell Renal Cell Carcinoma via Bioinformatical Analysis[J]. Chinese medical sciences journal, 2021, 36(2): 127-134.
DOI：

Jiang Ping, Sun Taotao, Chen Cunwu, et al. Identification of Prognostic Related Hub Genes in Clear-Cell Renal Cell Carcinoma via Bioinformatical Analysis[J]. Chinese medical sciences journal, 2021, 36(2): 127-134. DOI： 10.24920/003651.

摘要

目的

识别与肾透明细胞癌预后相关的关键基因。

方法

基于生物信息学分析技术对GEO数据库中的62个肾透明细胞癌样本和54个正常肾组织的数据集（GSE12606

GSE36895和GSE66272）进行分析。首先在GEO2R和J Venn网站上获取差异表达基因基因

之后采用GO和KEGG对基因进行功能注释;在使用STRING网站构建PPI网络后

采用Cytoscape软件的MCODE App对核心基因进行筛选;最后利用GEPIA网站分析与生存率有关的核心基因。

结果

我们共发现648个差异表达基因

包括222个上调表达基因和426个下调表达基因。PPI蛋白网络分析共发现28个表达上调的核心基因

其中7个核心基因（

CCNE2

CDK1

CDC6

CCNB2

BUB1

TTK

和

PTTG1

）富集于细胞周期

4个（

CCNE2

CDK1

CCNB2

和

RRM2

）富集于p53信号通路。GEPIA生存率分析发现：

CDK1

CCNB2

RRM2

BUB1

PTTG1

与肾透明细胞癌患者的生存率密切相关。肾透明细胞癌患者

BUB1

CCNB2

PTTG1

和

RRM2

等4个关键基因的表达量高于正常人群（

0.05）。

结论

BUB1

、

CCNB2

、

PTTG1

、

RRM2

等4个上调差异表达基因可能是肾透明细胞癌患者预后关键预测基因。

Abstract

Objective

To identify new genes that correlate with prognosis of clear-cell renal cell carcinoma (ccRCC)

via

bioinformatics analysis.

Methods

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 GEO2R 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.

Results

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 (

0.05).

Conclusion

ccRCC patients with the four up-regulated differentially expressed genes including

BUB1

CCNB2

PTTG1

and

RRM2

might manifest a poor prognosis.

关键词

Keywords

references

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

DOI：10.24920/003651

摘要

Abstract

关键词

Keywords

references