Profiles of alternative splicing events in the diagnosis and prognosis of Gastric Cancer

Wei, Chunyin; Xie, Weishun; Huang, Xiaoliang; Mo, Xianwei; Liu, Zujun; Wu, Guo; Meng, Yongsheng; Jeen, Franco; Ge, Lianying; Zhang, Lihua; Liao, Lixian; Liu, Jungang; Tang, Weizhong

doi:10.7150/jca.46239

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J Cancer 2021; 12(10):2982-2992. doi:10.7150/jca.46239 This issue Cite

Research Paper

Profiles of alternative splicing events in the diagnosis and prognosis of Gastric Cancer

Chunyin Wei^1,2*, Weishun Xie^1,2*, Xiaoliang Huang^1,2, Xianwei Mo^1,2, Zujun Liu^1,2, Guo Wu^1,2, Yongsheng Meng^1,2, Franco Jeen^1,2, Lianying Ge^2,3, Lihua Zhang^1,2, Lixian Liao^1,2, Jungang Liu^1,2✉, Weizhong Tang^1,2✉

1. Department of Gastrointestinal Surgery, Guangxi Medical University Cancer Hospital, Nanning, Guangxi Zhuang Autonomous Region 530021, P.R. China.
2. Guangxi Clinical Research Center for Colorectal Cancer, Nanning, Guangxi Zhuang Autonomous Region 530021, P.R. China.
3. Department of Medical Oncology, Guangxi Medical University Cancer Hospital, Nanning, Guangxi Zhuang Autonomous Region 530021, P.R. China.
*These authors contributed equally to this work.

✉ Corresponding authors: Weizhong Tang, Department of Gastrointestinal Surgery, Guangxi Medical University Cancer Hospital, Nanning, Guangxi Zhuang Autonomous Region 530021, P.R. China. Tel: +86-771-531-2000; Fax: +86-771-531-2000; E-mail: tangweizhon More

Citation:

Wei C, Xie W, Huang X, Mo X, Liu Z, Wu G, Meng Y, Jeen F, Ge L, Zhang L, Liao L, Liu J, Tang W. Profiles of alternative splicing events in the diagnosis and prognosis of Gastric Cancer. J Cancer 2021; 12(10):2982-2992. doi:10.7150/jca.46239. https://www.jcancer.org/v12p2982.htm

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Abstract

Background: Gastric cancer (GC) is a heterogeneous disease, and alternative splicing (AS) is a powerful universal transcriptional regulatory mechanism that contributes to the occurrence and development of cancer. However, the systematic analysis of AS events in GC is lacking; therefore, further studies are needed.

Methods: Genome-wide analysis of AS events was performed using RNA-Seq data to evaluate the difference between GC and adjacent tissues at the AS level. Prognostic signatures based on differentially expressed alternative splicing (DEAS) events and a correlation network between DEAS and genes were built.

Results: We identified 48,141 AS events, of which 2325 showed differential expression patterns. The parental genes before DEAS events play an essential role in regulating GC-related processes such as ribosome (FDR < 0.0001) and thermogenesis (FDR = 0.0002). There were 76 survival-associated DEAS cases. Stratifying patients according to the percent spliced in index value of six types of splicing patterns formed significant Kaplan-Meier curves in the overall survival analysis. A prognostic feature based on DEAS performed well for stratification in patients with GC.

Conclusion: The present study will enrich our understanding regarding the distinction of GC and provide a generous amount of biomarkers and potential targets for the treatment of GC.

Keywords: alternative splicing, prognostic signature, gastric cancer, survival, TCGA

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APA

Wei, C., Xie, W., Huang, X., Mo, X., Liu, Z., Wu, G., Meng, Y., Jeen, F., Ge, L., Zhang, L., Liao, L., Liu, J., Tang, W. (2021). Profiles of alternative splicing events in the diagnosis and prognosis of Gastric Cancer. Journal of Cancer, 12(10), 2982-2992. https://doi.org/10.7150/jca.46239.

ACS

Wei, C.; Xie, W.; Huang, X.; Mo, X.; Liu, Z.; Wu, G.; Meng, Y.; Jeen, F.; Ge, L.; Zhang, L.; Liao, L.; Liu, J.; Tang, W. Profiles of alternative splicing events in the diagnosis and prognosis of Gastric Cancer. J. Cancer 2021, 12 (10), 2982-2992. DOI: 10.7150/jca.46239.

NLM

CSE

Wei C, Xie W, Huang X, Mo X, Liu Z, Wu G, Meng Y, Jeen F, Ge L, Zhang L, Liao L, Liu J, Tang W. 2021. Profiles of alternative splicing events in the diagnosis and prognosis of Gastric Cancer. J Cancer. 12(10):2982-2992.

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