Identification of prognostic splicing factors and exploration of their potential regulatory mechanisms in pancreatic adenocarcinoma
Pancreatic adenocarcinoma (PAAD), the most common subtype of pancreatic cancer, is a highly lethal disease. In this study, we integrated the expression profiles of splicing factors (SFs) of PAAD from RNA-sequencing data to provide a comprehensive view of the clinical significance of SFs. A prognosti...
| Main Authors: | , , , , , , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
PeerJ Inc.
2020-02-01
|
| Series: | PeerJ |
| Subjects: | |
| Online Access: | https://peerj.com/articles/8380.pdf |
| _version_ | 1827612211769507840 |
|---|---|
| author | Min-hua Rong Zhan-hui Zhu Ying Guan Mei-wei Li Jia-shuo Zheng Yue-qi Huang Dan-ming Wei Ying-mei Li Xiao-ju Wu Hui-ping Bu Hui-liu Peng Xiao-lin Wei Guo-sheng Li Ming-xuan Li Ming-hui Chen Su-ning Huang |
| author_facet | Min-hua Rong Zhan-hui Zhu Ying Guan Mei-wei Li Jia-shuo Zheng Yue-qi Huang Dan-ming Wei Ying-mei Li Xiao-ju Wu Hui-ping Bu Hui-liu Peng Xiao-lin Wei Guo-sheng Li Ming-xuan Li Ming-hui Chen Su-ning Huang |
| author_sort | Min-hua Rong |
| collection | DOAJ |
| description | Pancreatic adenocarcinoma (PAAD), the most common subtype of pancreatic cancer, is a highly lethal disease. In this study, we integrated the expression profiles of splicing factors (SFs) of PAAD from RNA-sequencing data to provide a comprehensive view of the clinical significance of SFs. A prognostic index (PI) based on SFs was developed using the least absolute shrinkage and selection operator (LASSO) COX analysis. The PI exhibited excellent performance in predicting the status of overall survival of PAAD patients. We also used the percent spliced in (PSI) value obtained from SpliceSeq software to quantify different types of alternative splicing (AS). The prognostic value of AS events was explored using univariate COX and LASSO COX analyses; AS-based PIs were also proposed. The integration of prognosis-associated SFs and AS events suggested the potential regulatory mechanisms of splicing processes in PAAD. This study defined the markedly clinical significance of SFs and provided novel insight into their potential regulatory mechanisms. |
| first_indexed | 2024-03-09T08:18:08Z |
| format | Article |
| id | doaj.art-eb4ab88f81bc4363bfcfba3569f8f407 |
| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T08:18:08Z |
| publishDate | 2020-02-01 |
| publisher | PeerJ Inc. |
| record_format | Article |
| series | PeerJ |
| spelling | doaj.art-eb4ab88f81bc4363bfcfba3569f8f4072023-12-02T21:59:48ZengPeerJ Inc.PeerJ2167-83592020-02-018e838010.7717/peerj.8380Identification of prognostic splicing factors and exploration of their potential regulatory mechanisms in pancreatic adenocarcinomaMin-hua Rong0Zhan-hui Zhu1Ying Guan2Mei-wei Li3Jia-shuo Zheng4Yue-qi Huang5Dan-ming Wei6Ying-mei Li7Xiao-ju Wu8Hui-ping Bu9Hui-liu Peng10Xiao-lin Wei11Guo-sheng Li12Ming-xuan Li13Ming-hui Chen14Su-ning Huang15Affiliated Cancer Hospital, Guangxi Medical University, Research Department, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaAffiliated Cancer Hospital, Guangxi Medical University, Research Department, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaAffiliated Cancer Hospital, Guangxi Medical University, Department of Radiotherapy, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaAffiliated Cancer Hospital, Guangxi Medical University, Research Department, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaAffiliated Cancer Hospital, Guangxi Medical University, Research Department, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaAffiliated Cancer Hospital, Guangxi Medical University, Research Department, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaFirst Affiliated Hospital, Guangxi Medical University, Department of Pathology, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaFirst Affiliated Hospital, Guangxi Medical University, Department of Pathology, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaFirst Affiliated Hospital, Guangxi Medical University, Department of Pathology, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaAffiliated Cancer Hospital, Guangxi Medical University, Research Department, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaAffiliated Cancer Hospital, Guangxi Medical University, Research Department, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaAffiliated Cancer Hospital, Guangxi Medical University, Research Department, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaAffiliated Cancer Hospital, Guangxi Medical University, Research Department, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaAffiliated Cancer Hospital, Guangxi Medical University, Research Department, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaAffiliated Cancer Hospital, Guangxi Medical University, Research Department, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaAffiliated Cancer Hospital, Guangxi Medical University, Department of Radiotherapy, Nanning, Guangxi Zhuang Autonomous Region, P.R. ChinaPancreatic adenocarcinoma (PAAD), the most common subtype of pancreatic cancer, is a highly lethal disease. In this study, we integrated the expression profiles of splicing factors (SFs) of PAAD from RNA-sequencing data to provide a comprehensive view of the clinical significance of SFs. A prognostic index (PI) based on SFs was developed using the least absolute shrinkage and selection operator (LASSO) COX analysis. The PI exhibited excellent performance in predicting the status of overall survival of PAAD patients. We also used the percent spliced in (PSI) value obtained from SpliceSeq software to quantify different types of alternative splicing (AS). The prognostic value of AS events was explored using univariate COX and LASSO COX analyses; AS-based PIs were also proposed. The integration of prognosis-associated SFs and AS events suggested the potential regulatory mechanisms of splicing processes in PAAD. This study defined the markedly clinical significance of SFs and provided novel insight into their potential regulatory mechanisms.https://peerj.com/articles/8380.pdfSplicing factorsPancreatic adenocarcinomaRNA-sequencingOverall survival |
| spellingShingle | Min-hua Rong Zhan-hui Zhu Ying Guan Mei-wei Li Jia-shuo Zheng Yue-qi Huang Dan-ming Wei Ying-mei Li Xiao-ju Wu Hui-ping Bu Hui-liu Peng Xiao-lin Wei Guo-sheng Li Ming-xuan Li Ming-hui Chen Su-ning Huang Identification of prognostic splicing factors and exploration of their potential regulatory mechanisms in pancreatic adenocarcinoma PeerJ Splicing factors Pancreatic adenocarcinoma RNA-sequencing Overall survival |
| title | Identification of prognostic splicing factors and exploration of their potential regulatory mechanisms in pancreatic adenocarcinoma |
| title_full | Identification of prognostic splicing factors and exploration of their potential regulatory mechanisms in pancreatic adenocarcinoma |
| title_fullStr | Identification of prognostic splicing factors and exploration of their potential regulatory mechanisms in pancreatic adenocarcinoma |
| title_full_unstemmed | Identification of prognostic splicing factors and exploration of their potential regulatory mechanisms in pancreatic adenocarcinoma |
| title_short | Identification of prognostic splicing factors and exploration of their potential regulatory mechanisms in pancreatic adenocarcinoma |
| title_sort | identification of prognostic splicing factors and exploration of their potential regulatory mechanisms in pancreatic adenocarcinoma |
| topic | Splicing factors Pancreatic adenocarcinoma RNA-sequencing Overall survival |
| url | https://peerj.com/articles/8380.pdf |
| work_keys_str_mv | AT minhuarong identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT zhanhuizhu identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT yingguan identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT meiweili identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT jiashuozheng identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT yueqihuang identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT danmingwei identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT yingmeili identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT xiaojuwu identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT huipingbu identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT huiliupeng identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT xiaolinwei identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT guoshengli identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT mingxuanli identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT minghuichen identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma AT suninghuang identificationofprognosticsplicingfactorsandexplorationoftheirpotentialregulatorymechanismsinpancreaticadenocarcinoma |