[miso-users] About novel events not in the MISO GFF3 annotation.

[Tang, Xiaojia, Ph.D.]

Hi everyone on the miso ML,

I have been using MISO for identifying possible alternative splicing events in RNA-Seq data. It works well for events that are in the GFF3 files. However, this time in a new analysis we are expected to detect some exon-skipped events in a known isoform, which would result in a novel isoform. We have been able to see it happen in IGV. But we will need to use some algorithm in order to detect such events genome-widely. I know that MISO's event-centric or isoform-centric model would work basing on the provided events, and also only detected those events/isoforms. Is there a way to detect possible skipping events of a known exon which might be a novel event resulting in a novel isoform?

Thanks,
Xiaojia
Informatics Specialist
Department of Health Sciences Research
Mayo Clinic Rochester
Rochester, MN 55901

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