Literature DB >> 33500226

Computing the Role of Alternative Splicing in Cancer.

Zhaoqi Liu1, Raul Rabadan2.   

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.
Copyright © 2021 Elsevier Inc. All rights reserved.

Entities:  

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

Mesh：

Substances：

Year:  2021        PMID： 33500226      PMCID： PMC7969404          DOI： 10.1016/j.trecan.2020.12.015

Source DB:  PubMed          Journal:  Trends Cancer        ISSN： 2405-8025


  92 in total

1.  Deciphering the splicing code.

Authors:  Yoseph Barash; John A Calarco; Weijun Gao; Qun Pan; Xinchen Wang; Ofer Shai; Benjamin J Blencowe; Brendan J Frey
Journal:  Nature       Date:  2010-05-06       Impact factor: 49.962

Review 2.  Alternative pre-mRNA splicing regulation in cancer: pathways and programs unhinged.

Authors:  Charles J David; James L Manley
Journal:  Genes Dev       Date:  2010-11-01       Impact factor: 11.361

Review 3.  A day in the life of the spliceosome.

Authors:  A Gregory Matera; Zefeng Wang
Journal:  Nat Rev Mol Cell Biol       Date:  2014-02       Impact factor: 94.444

4.  Robust detection of alternative splicing in a population of single cells.

Authors:  Joshua D Welch; Yin Hu; Jan F Prins
Journal:  Nucleic Acids Res       Date:  2016-01-05       Impact factor: 16.971

5.  EGFR mutation-induced alternative splicing of Max contributes to growth of glycolytic tumors in brain cancer.

Authors:  Ivan Babic; Erik S Anderson; Kazuhiro Tanaka; Deliang Guo; Kenta Masui; Bing Li; Shaojun Zhu; Yuchao Gu; Genaro R Villa; David Akhavan; David Nathanson; Beatrice Gini; Sergey Mareninov; Rui Li; Carolina Espindola Camacho; Siavash K Kurdistani; Ascia Eskin; Stanley F Nelson; William H Yong; Webster K Cavenee; Timothy F Cloughesy; Heather R Christofk; Douglas L Black; Paul S Mischel
Journal:  Cell Metab       Date:  2013-05-23       Impact factor: 27.287

Review 6.  Misregulation of pre-mRNA alternative splicing in cancer.

Authors:  Jian Zhang; James L Manley
Journal:  Cancer Discov       Date:  2013-10-21       Impact factor: 39.397

7.  Identification of recurrent regulated alternative splicing events across human solid tumors.

Authors:  Miri Danan-Gotthold; Regina Golan-Gerstl; Eli Eisenberg; Keren Meir; Rotem Karni; Erez Y Levanon
Journal:  Nucleic Acids Res       Date:  2015-04-23       Impact factor: 16.971

8.  MMP-14 and CD44 in Epithelial-to-Mesenchymal Transition (EMT) in ovarian cancer.

Authors:  Maria Caroline Vos; Eva Hollemans; Nicole Ezendam; Harry Feijen; Dorry Boll; Brenda Pijlman; Hans van der Putten; Paul Klinkhamer; Toin H van Kuppevelt; Anneke A M van der Wurff; Leon F A G Massuger
Journal:  J Ovarian Res       Date:  2016-09-02       Impact factor: 4.234

9.  Alternative TSSs are co-regulated in single cells in the mouse brain.

Authors:  Kasper Karlsson; Peter Lönnerberg; Sten Linnarsson
Journal:  Mol Syst Biol       Date:  2017-05-11       Impact factor: 11.429

10.  Recurrent mutations at codon 625 of the splicing factor SF3B1 in uveal melanoma.

Authors:  J William Harbour; Elisha D O Roberson; Hima Anbunathan; Michael D Onken; Lori A Worley; Anne M Bowcock
Journal:  Nat Genet       Date:  2013-01-13       Impact factor: 38.330
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  5 in total

1.  Temporal Modulation of Differential Alternative Splicing in HaCaT Human Keratinocyte Cell Line Chronically Exposed to Arsenic for up to 28 Wk.

Authors:  Ana P Ferragut Cardoso; Mayukh Banerjee; Laila Al-Eryani; Mohammed Sayed; Daniel W Wilkey; Michael L Merchant; Juw W Park; J Christopher States
Journal:  Environ Health Perspect       Date:  2022-01-24       Impact factor: 9.031

Review 2.  Targeting Splicing Factor SRSF6 for Cancer Therapy.

Authors:  Wenting She; Jun Shao; Rong Jia
Journal:  Front Cell Dev Biol       Date:  2021-11-30

3.  Identification of RNA Modification-Associated Alternative Splicing Signature as an Independent Factor in Head and Neck Squamous Cell Carcinoma.

Authors:  Jie Liu; Wenmin Deng; Zhiwen Xiao; Xiaofeng Huang; Minmin Lin; Zhen Long
Journal:  J Immunol Res       Date:  2022-09-13       Impact factor: 4.493

4.  Distinct microglia alternative splicing in Alzheimer's disease.

Authors:  Yanjun Lu; Lu Tan; Jiazhao Xie; Liming Cheng; Xiong Wang
Journal:  Aging (Albany NY)       Date:  2022-08-23       Impact factor: 5.955

5.  Novel prognostic model predicts overall survival in colon cancer based on RNA splicing regulation gene expression.

Authors:  Qiu-Yun Luo; Tian Di; Zhi-Gang Chen; Jian-Hong Peng; Jian Sun; Zeng-Fei Xia; Wen-Tao Pan; Fan Luo; Fei-Teng Lu; Yu-Ting Sun; Li-Qiong Yang; Lin Zhang; Miao-Zhen Qiu; Da-Jun Yang
Journal:  Cancer Sci       Date:  2022-08-16       Impact factor: 6.518
  5 in total

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