IsoformSwitchAnalyzeR: analysis of changes in genome-wide patterns of alternative splicing and its functional consequences
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IsoformSwitchAnalyzeR : analysis of changes in genome-wide patterns of alternative splicing and its functional consequences. / Vitting-Seerup, Kristoffer; Sandelin, Albin.
I: Bioinformatics, Bind 35, Nr. 21, 2019, s. 4469-4471.Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt
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TY - JOUR
T1 - IsoformSwitchAnalyzeR
T2 - analysis of changes in genome-wide patterns of alternative splicing and its functional consequences
AU - Vitting-Seerup, Kristoffer
AU - Sandelin, Albin
N1 - © The Author(s) (2019). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.
PY - 2019
Y1 - 2019
N2 - 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.
AB - 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.
U2 - 10.1093/bioinformatics/btz247
DO - 10.1093/bioinformatics/btz247
M3 - Journal article
C2 - 30989184
VL - 35
SP - 4469
EP - 4471
JO - Computer Applications in the Biosciences
JF - Computer Applications in the Biosciences
SN - 1471-2105
IS - 21
ER -
ID: 223452659