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Original Research ARTICLE Provisionally accepted The full-text will be published soon. Notify me

Front. Oncol. | doi: 10.3389/fonc.2019.00773

Genome-wide profiling of prognostic alternative splicing pattern in pancreatic cancer.

  • 1Department of General Surgery, Guangdong Provincial People's Hospital, China
  • 2Department of Medical Imaging, The First Affiliated Hospital of Guangdong Pharmaceutical University, China
  • 3Guangdong Provincial People's Hospital, China

Alternative splicing (AS) has a critical role in tumor progression and prognosis. Our study aimed to investigate pancreatic cancer-specific AS events using RNA-seq data, gaining systematic insights into potential prognostic predictors. We downloaded 10623 genes with 45313 pancreatic cancer-specific AS events from the Cancer Genome Atlas (TCGA) and SpliceSeq database. Cox univariate analyses of overall survival suggested there was a remarkable association between 6711 AS events and overall survival in pancreatic cancer patients (P<0.05). The area under the curves of the receiver operator characteristic curves(ROC)of risk score was 0.89 for final prognostic predictor. Results indicated that AS events of DAZAP1, RBM4, ESRP1, QKI, and SF1 were significantly associated with overall survival. The results of FunRich showed that transcription factors KLF7, GABPA, and SP1 were the most highly related to survival-associated AS genes. Furthermore, using DriverDBv2, we identified 13 driver genes associated with survival-associated AS events, including TP53 and CDC27. Thus, we concluded that the aberrant AS patterns in pancreatic cancer patients might serve as prognostic predictors.

Keywords: Alternative Splicing, Pancreatic Cancer, prognosis, Driver gene, TCGA

Received: 24 Apr 2019; Accepted: 31 Jul 2019.

Copyright: © 2019 Yu, Hong, Ruan, Guan, Tu, Huang, Hou, Jian, Ma and Jin. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence: Dr. Renguo Guan, Guangdong Provincial People's Hospital, Guangzhou, China, guanrenguo@gdph.org.cn