Identify clear cell renal cell carcinoma related genes by gene network.

Fangrong Yan,Xiaofan Lu,Fei Wang,Chunhui Liu,Liya Zhang,Chen Chen,Huiling Zhao,Yaoyan Wang,Tao Lu,Yue Wang

doi:10.18632/oncotarget.22769

Fangrong Yan, Xiaofan Lu + Show 8 more

Open Access

https://doi.org/10.18632/oncotarget.22769

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Abstract

Clear cell renal cell carcinoma (ccRCC) is the most prominent type of kidney cancer in adults. The patients within metastatic ccRCC have a poor 5-year survival rate that is less than 10%. It is essential to identify ccRCC -related genes to help with the understanding of molecular mechanism of ccRCC. In this literature, we aim to identify genes related to ccRCC based on a gene network. We collected gene expression level data of ccRCC from the Cancer Genome Atlas (TCGA) for our analysis. We constructed a co-expression gene network as the first step of our study. Then, the network sparse boosting approach was performed to select the genes which are relevant to ccRCC. Results of our study show there are 15 genes selected from the all genes we collected. Among these genes, 7 of them have been demonstrated to play a key role in development and progression or in drug response of ccRCC. This finding offers clues of gene markers for the treatment of ccRCC.

Highlights

Renal cell carcinoma (RCC) is eighth highest cause of cancer mortality in adults, counting for almost 3% of all human malignancies [1]
The patients within metastatic Clear cell renal cell carcinoma (ccRCC) have a poor 5-year survival rate that is less than 10%
We aim to identify genes related to ccRCC based on a gene network

Summary

Introduction

Renal cell carcinoma (RCC) is eighth highest cause of cancer mortality in adults, counting for almost 3% of all human malignancies [1]. Clear cell RCC (ccRCC), the most common type of RCC, accounts for about 80% of RCC cases [2,3,4]. Most of ccRCC patients usually present initially with localized disease, treated with surgery. Approximately 30% of ccRCC patients with localized disease eventually develop metastases that leads to a poor 5-year survival rate that is less than 10% [5]. With the advent of advanced development of gene sequencing technology, many studies have focused on the molecular mechanism of cancers aimed to understand insight of cancers. As for ccRCC, there are evidences showing that some important genes play key roles in ccRCC tumor like frequent mutation or methylation of the tumor suppressor gene (VHL) [6], frequent mutations of PBRM1, BAP1, SETD2 and KDM5C genes [7,8,9]

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