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

Bioinformatics
Nicholas K AkersBojan Losic

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.

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Citations

Feb 28, 2020·Briefings in Bioinformatics·Liang ChenGarry Wong
Mar 30, 2020·Science China. Life Sciences·Cong LiuZhihua Zhang
Jan 8, 2020·International Journal of Molecular Sciences·Giulio FerreroMarco Beccuti
Jan 17, 2020·Nature Communications·Bojan LosicAugusto Villanueva
Apr 24, 2020·Cancer Immunology Research·Marie-Claire WagleZineb Mounir
Feb 23, 2021·Frontiers in Cell and Developmental Biology·Sabah NisarMohammad Haris
Mar 13, 2021·Nature Biotechnology·Jinyang ZhangFangqing Zhao

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