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STAR Chimeric Post for rapid detection of circular RNA and fusion transcripts

Author:
Akers, Nicholas K, Schadt, Eric E, Losic, Bojan
Source:
Bioinformatics 2018 v.34 no.14 pp. 2364-2370
ISSN:
1460-2059
Subject:
bioinformatics, circular RNA, computer software, data collection, messenger RNA, neoplasms, rapid methods
Abstract:
The biological relevance of chimeric RNA alignments is now well established. Chimera arising as chromosomal fusions are often drivers of cancer and recently discovered circular RNA (circRNA) are only now being characterized. While software already exists for fusion discovery and quantitation, high false positive rates and high run-times hamper scalable fusion discovery on large datasets. Furthermore, software available for circRNA detection and quantification is limited. Here, we present STAR Chimeric Post (STARChip), a novel software package that processes chimeric alignments from the STAR aligner and produces annotated circRNA and high precision fusions in a rapid, efficient and scalable manner that is appropriate for high dimensional medical omics datasets. STARChip is available at https://github.com/LosicLab/STARChip. Supplementary data are available at Bioinformatics online.
Agid:
6249436