Computing the Role of Alternative Splicing in Cancer

Zhaoqi Liu; Raul Rabadan

doi:10.1016/j.trecan.2020.12.015

Computing the Role of Alternative Splicing in Cancer

Trends Cancer. 2021 Apr;7(4):347-358. doi: 10.1016/j.trecan.2020.12.015. Epub 2021 Jan 23.

Authors

Zhaoqi Liu¹, Raul Rabadan²

Affiliations

¹ CAS Key Laboratory of Genomic and Precision Medicine, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China; China National Center for Bioinformation, Beijing 100101, China. Electronic address: liuzq@big.ac.cn.
² Program for Mathematical Genomics, Columbia University, New York, NY 10032, USA; Departments of Systems Biology and Biomedical Informatics, Columbia University, New York, NY 10032, USA. Electronic address: rr2579@cumc.columbia.edu.

Abstract

Most human genes undergo alternative splicing (AS), and dysregulation of alternative splicing contributes to tumor initiation and progression. Computational analysis of genomic and transcriptomic data enables the systematic characterization of alternative splicing and its functional role in cancer. In this review, we summarize the latest computational approaches to studying alternative splicing in cancer and the current limitations of the most popular tools in this field. Finally, we describe some of the current computational challenges in the characterization of the role of alternative splicing in cancer.

Keywords: alternative splicing; cancer; computational analysis; spliceosomal mutations.

Publication types

Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Review

MeSH terms

Alternative Splicing*
Animals
Computational Biology
Humans
Neoplasms / genetics*
RNA, Messenger

Substances

RNA, Messenger

Abstract

Publication types

MeSH terms

Substances

Grants and funding