IsoformSwitchAnalyzeR: analysis of changes in genome-wide patterns of alternative splicing and its functional consequences
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SUMMARY: Alternative splicing is an important mechanism involved in both health and disease. Recent work highlights the importance of investigating genome-wide changes in patters of splicing and the subsequent functional consequences. Current computational methods only support such analysis on a gene-by-gene basis. Therefore, we extended IsoformSwitchAnalyzeR R library to enable analysis of genome-wide changes in specific types of alternative splicing and predicted functional consequences of the resulting isoform switches. As a case study, we analyzed RNA-seq data from The Cancer Genome Atlas and found systematic changes in alternative splicing and the consequences of the associated isoform switches.
AVAILABILITY: Windows, Linux and Mac OS: http://bioconductor.org/packages/IsoformSwitchAnalyzeR.
SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
Original language | English |
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Journal | Bioinformatics |
Volume | 35 |
Issue number | 21 |
Pages (from-to) | 4469-4471 |
ISSN | 1367-4803 |
DOIs | |
Publication status | Published - 2019 |
Bibliographical note
© The Author(s) (2019). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.
Links
- https://www.biorxiv.org/content/10.1101/399642v1.full.pdf
Submitted manuscript
ID: 223452659