software that finding gene fusions on exome sequencing?

[libiyagirl]

Hi all,

I'm thinking using exome sequencing data to look at gene fusions or larger indels. Does anyone know which software is good for this? I know it's going to be difficult because most breakpoints are in introns. Any suggesion?

Thank you!

[ymc]

FusionMap can also work on genomic DNA sequences. I am not sure if it works for exome-seq.

This paper seems to be able to find fusion genes from exome-seq. I wonder what software they use to do that

http://www.ncbi.nlm.nih.gov/pubmed/23313954

[stianlagstad]

FusionMap can also work on genomic DNA sequences. I am not sure if it works for exome-seq.

This paper seems to be able to find fusion genes from exome-seq. I wonder what software they use to do that

http://www.ncbi.nlm.nih.gov/pubmed/23313954

Sorry to bring back such an old post, but I went through a little hassle to figure it out and I think it might be useful for others:

They used dRanger (not publicly available) and Breakpointer.