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Stitchr: stitching coding TCR nucleotide sequences from V/J/CDR3 information

Nucleic Acids Res. 2022-07; 
James M Heather, Matthew J Spindler, Marta Herrero Alonso, Yifang Ivana Shui, David G Millar, David S Johnson, Mark Cobbold, Aaron N Hata
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Proteins, Expression, Isolation and Analysis … Stained cells were then peptide pulsed with 10, 1, or 0 μg/ml of the relevant peptide epitope (GenScript, ≥85% purity) for 1 hour at RT in complete media, washed twice, and co-cultured … Get A Quote

摘要

The study and manipulation of T cell receptors (TCRs) is central to multiple fields across basic and translational immunology research. Produced by V(D)J recombination, TCRs are often only recorded in the literature and data repositories as a combination of their V and J gene symbols, plus their hypervariable CDR3 amino acid sequence. However, numerous applications require full-length coding nucleotide sequences. Here we present Stitchr, a software tool developed to specifically address this limitation. Given minimal V/J/CDR3 information, Stitchr produces complete coding sequences representing a fully spliced TCR cDNA. Due to its modular design, Stitchr can be used for TCR engineering using either published ger... More

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