Comprehensive analysis of metastasis-related genes reveals a gene signature predicting the survival of colon cancer patients

PeerJ
Haotang WeiBangli Hu

Abstract

The mechanism underlying colon cancer metastasis remain unclear. This study aimed to elucidate the genes alteration during the metastasis of colon cancer and identify genes that crucial to the metastasis and survival of colon cancer patients. The dataset of primary and metastasis tissue of colon cancer, and dataset of high and low metastasis capability of colon cancer cells were selected as training cohort, and the overlapped differentially expressed genes (DEGs) were screened from the training cohort. The functional enrichment analysis for the overlapped DEGs was performed. The prognostic value of overlapped DEGs were analyzed in The Cancer Genome Atlas dataset, and a gene signature was developed using genes that related to the overall survival (OS). The prognostic value of the gene signature was further confirmed in a validation cohort. A total of 184 overlapped DEGs were screened from the training cohort. Functional enrichment analysis revealed the significant gene functions and pathways of the overlapped DEGs. Four hub genes (3-oxoacid CoA-transferase 1, actinin alpha 4, interleukin 8, integrin subunit alpha 3) were identified using protein-protein network analysis. Six genes (aldehyde dehydrogenase 2, neural precursor cell...Continue Reading

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Datasets Mentioned

BETA
GSE2509
GSE40367
GSE41258

Software Mentioned

R package “ survivalROC ”
MCODE
limma
DAVID
Illumina Correlation Engine
Cytoscape
Partek Genomics
R
Search Tool for the Retrieval
Bioconductor

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