Systematic analysis of the function and prognostic value of RNA binding proteins in Colon Adenocarcinoma

Qi, Xuewei; Liu, Zeyu; Zhang, Qiaoli; Yang, Ming; Wan, Yuxiang; Huang, Jinchang; Xu, Lin

doi:10.7150/jca.50407

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J Cancer 2021; 12(9):2537-2549. doi:10.7150/jca.50407 This issue Cite

Research Paper

Systematic analysis of the function and prognostic value of RNA binding proteins in Colon Adenocarcinoma

Xuewei Qi^1*, Zeyu Liu^1*, Qiaoli Zhang¹, Ming Yang³, Yuxiang Wan¹, Jinchang Huang^1,2✉, Lin Xu^1✉

1. Third Affiliated Hospital, Beijing University of Chinese Medicine, Beijing 100029, China.
2. Institute of Acupuncture and Moxibustion in Cancer Care, Beijing University of Chinese Medicine, Beijing 100029, China.
3. School of Traditional Chinese Medicine, Beijing University of Chinese Medicine, Beijing 100029, China.
*These authors contributed equally to the work.

Citation:

Qi X, Liu Z, Zhang Q, Yang M, Wan Y, Huang J, Xu L. Systematic analysis of the function and prognostic value of RNA binding proteins in Colon Adenocarcinoma. J Cancer 2021; 12(9):2537-2549. doi:10.7150/jca.50407. https://www.jcancer.org/v12p2537.htm

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Abstract

Background: Abnormal expression of RNA-binding proteins (RBPs) is closely related to tumorigenesis, progression, and prognosis. This study performed systematic bioinformatic analysis of RBPs abnormally expressed in colon adenocarcinoma (COAD) using the Cancer Genome Atlas (TCGA) database to screen prognostic markers and potential therapeutic targets.

Methods: First, the gene expression data from COAD samples were used to screen out differentially expressed RBPs for functional enrichment analysis and to visualize interaction relationships. Second, RBPs that were significantly related to prognosis were screened through univariate and multivariate Cox regression analysis to construct a prognostic model. The prediction performance of the prognostic model was evaluated by survival analysis and receiver operating characteristic (ROC) curve analysis. It addition, it was verified in the test cohort. The Human Protein Atlas (HPA) online database was used to verify the expression levels of RBPs in the prognostic model.

Results: The study identified 181 differentially expressed RBPs and analyzed their interaction and functional enrichment, which were mainly related to non-coding RNA processing, ribosome biogenesis, RNA metabolic processes, RNA phosphodiester bond hydrolysis, and alternative mRNA splicing. Five RBPs related to prognosis were used to construct a prognostic model, and its predictive ability was verified by the test cohort. ROC curve analysis showed that the prognostic model had good sensitivity and specificity. Independent prognostic analysis showed that risk scores could be used as independent prognostic factors for COAD.

Conclusion: This study constructed a reliable prognostic model by analyzing COAD differentially expressed RBPs, facilitating the screening of COAD prognostic markers and therapeutic targets.

Keywords: RNA-binding proteins (RBPs), colon adenocarcinoma (COAD), prognosis analysis, predictive model

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APA

Qi, X., Liu, Z., Zhang, Q., Yang, M., Wan, Y., Huang, J., Xu, L. (2021). Systematic analysis of the function and prognostic value of RNA binding proteins in Colon Adenocarcinoma. Journal of Cancer, 12(9), 2537-2549. https://doi.org/10.7150/jca.50407.

ACS

Qi, X.; Liu, Z.; Zhang, Q.; Yang, M.; Wan, Y.; Huang, J.; Xu, L. Systematic analysis of the function and prognostic value of RNA binding proteins in Colon Adenocarcinoma. J. Cancer 2021, 12 (9), 2537-2549. DOI: 10.7150/jca.50407.

NLM

CSE

Qi X, Liu Z, Zhang Q, Yang M, Wan Y, Huang J, Xu L. 2021. Systematic analysis of the function and prognostic value of RNA binding proteins in Colon Adenocarcinoma. J Cancer. 12(9):2537-2549.

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