Title:A 13-Immune Gene Set Signature for Prediction of Colon Cancer Prognosis
Volume: 24
Issue: 8
Author(s): Zhuo Lu, Jin Chen, JiongYi Yan, QiaoMing Liu, Fang Li, WanNa Xiong, Shida Lin, Kai Yu* Jianqin Liang*
Affiliation:
- College of Life Science and Technology, Guangxi University, Nanning, Nanning, 530004,China
- Department of Pharmacy, Guangxi University of Traditional Chinese Medicine, Nanning City, Guangxi Province, 530001,China
Keywords:
Bioinformatics, prognostic markers, TCGA, colon cancer, biomarker, cell mutation.
Abstract:
Background: Colon cancer is one of the most common cancers worldwide and has a
poor prognosis. Through the analysis of transcriptome and clinical data of colon cancer, an immune
gene-set signature was identified by single sample enrichment analysis (ssGSEA) scoring to
predict patient survival and discover new therapeutic targets.
Objective: To study the role of immune gene-set signature in colon cancer.
Methods: First, RNASeq and clinical follow-up information were downloaded from The Cancer
Genome Atlas (TCGA). Immune gene-related gene sets were collected from the ImmPort database.
Genes and immunological pathways related to prognosis were screened in the training set and integrated
for feature selection using random forest. The immune gene-related prognosis model was
verified in the entire TCGA test set and GEO validation set and compared with immune cells
scores and matrix score.
Results: A total of 1650 prognostic genes and 13 immunological pathways were identified. These
genes and pathways are closely related to the development of tumors. 13-immune gene-set signature
was established, which is an independent prognostic factor for patients with colon cancer. Risk
stratification of samples could be carried out in the training set, test set, and external validation set.
The AUC of five-year survival in the training set and validation set is greater than 0.6. Immunosuppression
occurs in high-risk samples and compared with published models, riskScore has a better
prediction effect.
Conclusion: This study constructed a 13-immune gene-set signature as a new prognostic marker to
predict the survival of patients with colon cancer, and provided new diagnostic/prognostic biomarkers
and therapeutic targets for colon cancer.
