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bioRxiv · 10.1101/701607

RNA-Bloom provides lightweight reference-free transcriptome assembly for single cells

Nip, K. M.·Chiu, R.·Yang, C.·Chu, J.·Mohamadi, H.·Warren, R. L.·Birol, I.
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Abstract

We present RNA-Bloom, a de novo RNA-seq assembly algorithm that leverages the rich information content in single-cell transcriptome sequencing (scRNA-seq) data to reconstruct cell-specific isoforms. We benchmark RNA-Blooms performance against leading bulk RNA-seq assembly approaches, and illustrate its utility in detecting cell-specific gene fusion events using sequencing data from HiSeq-4000 and BGISEQ-500 platforms. We expect RNA-Bloom to boost the utility of scRNA-seq data, expanding what is informatically accessible now.

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Nip, K. M., Chiu, R., Yang, C., Chu, J., Mohamadi, H., Warren, R. L., Birol, I.. 2019-07-14. RNA-Bloom provides lightweight reference-free transcriptome assembly for single cells. https://doi.org/10.1101/701607

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