遗传学报2024，Vol.51Issue(10) ：1030-1039.DOI:10.1016/j.jgg.2024.04.014

The landscape and clinical relevance of intronic polyadenylation in human cancers

Xiaomeng Cheng Guanghui Jiang Xiaolan Zhou Jing Wang Zhaozhao Zhao Jiayu Zhang Ting Ni
遗传学报2024，Vol.51Issue(10) ：1030-1039.DOI:10.1016/j.jgg.2024.04.014
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  • 维普
  • 万方数据

The landscape and clinical relevance of intronic polyadenylation in human cancers

Xiaomeng Cheng 1Guanghui Jiang 1Xiaolan Zhou 1Jing Wang 1Zhaozhao Zhao 2Jiayu Zhang 1Ting Ni3
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作者信息

  • 1. State Key Laboratory of Genetic Engineering,National Clinical Research Center for Aging and Medicine,Huashan Hospital,Collaborative Innovation Center of Genetics and Development,Human Phenome Institute,Center for Evolutionary Biology,Shanghai Engineering Research Center of Industrial Microorganisms,School of Life Sciences,Fudan University,Shanghai 200438,China
  • 2. State Key Laboratory of Genetic Engineering,National Clinical Research Center for Aging and Medicine,Huashan Hospital,Collaborative Innovation Center of Genetics and Development,Human Phenome Institute,Center for Evolutionary Biology,Shanghai Engineering Research Center of Industrial Microorganisms,School of Life Sciences,Fudan University,Shanghai 200438,China;MOE Key Laboratory of Contemporary Anthropology,School of Life Sciences,Fudan University,Shanghai 200438,China
  • 3. State Key Laboratory of Genetic Engineering,National Clinical Research Center for Aging and Medicine,Huashan Hospital,Collaborative Innovation Center of Genetics and Development,Human Phenome Institute,Center for Evolutionary Biology,Shanghai Engineering Research Center of Industrial Microorganisms,School of Life Sciences,Fudan University,Shanghai 200438,China;State Key Laboratory of Reproductive Regulation and Breeding of Grassland Livestock,Institutes of Biomedical Sciences,School of Life Sciences,Inner M
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Abstract

Intronic polyadenylation(IPA)is an RNA 3'end processing event which has been reported to play important roles in cancer development.However,the comprehensive landscape of IPA events across various cancer types is lacking.Here,we apply IPAFinder to identify and quantify IPA events in 10,383 samples covering all 33 cancer types from The Cancer Genome Atlas(TCGA)project.We identify a total of 21,835 IPA events,almost half of which are ubiquitously expressed.We identify 2761 unique dynamically changed IPA events across cancer types.Furthermore,we observe 8855 non-redundant clinically relevant IPA events,which could potentially be used as prognostic indicators.Our analysis also reveals that dynamic IPA usage within cancer signaling pathways may affect drug response.Finally,we develop a user-friendly data portal,IPACancer Atlas(http://www.tingni-lab.com/Pancan_IPA/),to search and explore IPAs in cancer.

Key words

Intronic polyadenylation/Cancer/Single nucleotide variant/Drug sensitivity/Database

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基金项目

National Natural science Foundation of China(92249302)

National Natural science Foundation of China(32370592)

National Key Research and Development Program of China(2023YFC3603300)

National Key Research and Development Program of China(2021YFA0909300)

出版年

2024
遗传学报
中国遗传学会 中国科学院遗传与发育生物学研究所

遗传学报

CSTPCDCSCD
影响因子：0.821
ISSN：1673-8527
参考文献量44
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