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Cancer TCR Repertoire Datasets

Hi, Is anyone aware of pubilcly available T Cell Receptor repertoire data sets from immuno-sequencing, particularly from tumor or PBMC in cancer patients or mouse. I am looking for a summarized form repertoire profile dataset that includes clonotype (AA and NT), number and frequency of clones, and V, D, J gene name for each clonotype. Thank you, - Pankaj

sequence cancer tcr repertoire dataset
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updated by mikhail.shugay mikhail.shugay • written by bioinformatics.cancer bioinformatics.cancer

2 answers

This paper may help.

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written by Denise CS Denise CS

The paper provided by Denise is about a software for T-cell repertoire post-analysis and thus doesn't contain cancer TCR repertoire datasets (as far as I remember it uses twin repertoire sequencing data from Zvyagin et al PNAS 2014). We have quite a large collection of sequenced repertoires, yet those are mostly from healthy people and people with autoimmune diseases. Regarding cancer datasets you can try to look in these papers:

and check out Immunoseq Analyzer page:

http://ww2.adaptivebiotech.com/IMMUNOSEQ-ANALYZER/DEMO

You'll have to register there and try to find cancer patient samples in published samples section (they can be exported as a tabular file with columns that you need)

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written by mikhail.shugay mikhail.shugay

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