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bioRxiv · 10.1101/2020.04.14.041905

Specific splice junction detection in single cells with SICILIAN

Dehghannasiri, R.·Olivieri, J. E.·Salzman, J.
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Abstract

Precise splice junction calls are currently unavailable in scRNA-seq pipelines such as the 10x Chromium platform but are critical for understanding single-cell biology. Here, we introduce SICILIAN, a new method that assigns statistical confidence to splice junctions from a spliced aligner to improve precision. SICILIANs precise splice detection achieves high accuracy on simulated data, improves concordance between matched single-cell and bulk datasets, increases agreement between biological replicates, and reliably detects un-annotated splicing in single cells, enabling the discovery of novel splicing regulation.

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Dehghannasiri, R., Olivieri, J. E., Salzman, J.. 2020-04-15. Specific splice junction detection in single cells with SICILIAN. https://doi.org/10.1101/2020.04.14.041905

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