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-   -   software that finding gene fusions on exome sequencing? (http://seqanswers.com/forums/showthread.php?t=12823)

libiyagirl 07-19-2011 07:30 AM

software that finding gene fusions on exome sequencing?
 
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 08-03-2013 11:44 PM

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 04-08-2016 05:29 AM

Quote:

Originally Posted by ymc (Post 112499)
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.


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