Intrachromosomal neighbors overlap

[Yuyun Zhang]

Hi CTAT-LR-fusion team, 

I used CTAT-LR-fusion to detect fusion events in PacBio and Nanopore long-read RNA-seq data. In the output results, there are many intrachromosomal neighbor overlap fusion events (about 90%). Upon checking the DNA reads (DNase-seq) and short RNA-seq reads, I found that these reads span the breakpoints identified in the long-read RNA-seq data.

Do you know how these intrachromosomal neighbor overlap fusion events form? Do you think they are long-read sequencing artifacts or real biological results?

Here is an example of ntrachromosomal neighbor overlap fusion:

I am looking forward to your reply and hope to discuss this with you!

Best,

Yuyun Zhang