Question: Alternative splicing event annotations method
0
gravatar for Rashedul Islam
8 months ago by
Canada
Rashedul Islam370 wrote:

Hi,

I am looking for a computational method to identify the number of instances of each alternative event category listed below from RNA-seq data. I tried MISO but does not give the output I wanted.

Any suggestion or link to any tool will be very helpful!

The event categories:

Skipped exons (SE)
Alternative 3’/5’ splice sites (A3SS, A5SS)
Mutually exclusive exons (MXE)
Tandem 3’ UTRs (TandemUTR)
Retained introns (RI)
Alternative first exons (AFE)
Alternative last exons (ALE)

rna-seq miso • 230 views
ADD COMMENTlink modified 8 months ago by lieven.sterck8.7k • written 8 months ago by Rashedul Islam370
0
gravatar for lieven.sterck
8 months ago by
lieven.sterck8.7k
VIB, Ghent, Belgium
lieven.sterck8.7k wrote:

In this publication: Exploration of alternative splicing events in ten different grapevine cultivars. , they introduced a tool called findAS , perhaps that could be of use?

ADD COMMENTlink written 8 months ago by lieven.sterck8.7k

Thanks! I might give a try.

ADD REPLYlink written 8 months ago by Rashedul Islam370

I found this review that summarizes the tools used to find most of the alternative splicing events from RNA-seq.

ADD REPLYlink written 5 months ago by Rashedul Islam370
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