Hi,
A platform will perform for our lab, in the next months, a full length RNA-Sequencing on T-cells and I wonder if it is possible to analyse TCR repertoires from the raw data (sorry for my ignorance in bioinformatics and genomics).
I saw that most of the TCR V beta analysis are based on a pre-amplification of the V beta sequences before sequencing analysis and really don't know if it could be done with non-amplified RNA-sequencing.
Thanks,
M.
Hi Mikhail,
Thank you for your help, I think I will need to get closer to Geneticists / Bioinformaticians able to understand how to use analysis software you presented.
B.R.
Maxim
Good luck then. But I think that RNA-seq data is not the best place to start getting familiar with Immune repertoire sequencing (Rep-Seq). I recommend you to get some publicly available RepSeq datasets (TCR ones) and polish your pipeline by comparing your RNA-Seq results to them as a "gold standard".