Can Whole Exome Sequencing BAM files used in the TCR/BCR analysis?

[tianxiao...@gmail.com]

Hi Bo

 

I am trying to analysis a type cancer TCR repertoire by TRUST, but there is only a Whole Exome Sequencing data type is availabe,concerning about the character  of  Whole Exome Sequencing, I am doubt whether it proper for to assemble  TCR hypervariable region?

thanks

tian

[Bo Li]

Hi Tian,

We haven't tested it on WES data yet, but it completely depends on if the exome capture kit covers the TCR locus. As far as I know, most of such kits don't.

Thanks,

Bo

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