Detection of fusions with RNA-seq

[Lien]

Hello all,

I realize that this is already a frequently asked question. Nevertheless, the latest posts I could find on this forum are already 1-2 years old!

What software would be recommended to detect fusions in RNA-seq data? At first thought, we would go for FusionCatcher, deFuse and/or Tophat-fusion. Any experience or comparisons for these tools?

Also, any suggestions on the amount of coverage/reads necessary to detect fusions. We would go for 100bp paired-end for sure, but not sure how deep to sequence.

Many thanks for any thoughts on this,
Lien

[ndaniel]

Hi!

here it is a comparison of different fusion finders!

http://code.google.com/p/fusioncatcher/wiki/comparison

Cheers,
Daniel

Hello all,

I realize that this is already a frequently asked question. Nevertheless, the latest posts I could find on this forum are already 1-2 years old!

What software would be recommended to detect fusions in RNA-seq data? At first thought, we would go for FusionCatcher, deFuse and/or Tophat-fusion. Any experience or comparisons for these tools?

Also, any suggestions on the amount of coverage/reads necessary to detect fusions. We would go for 100bp paired-end for sure, but not sure how deep to sequence.

Many thanks for any thoughts on this,
Lien