tcR

The T cell receptors (TCRs) play a crucial role in adaptive immune response, and millions of unique TCRs are estimated to be present in each individual. The TCRmodel is an algorithm developed in the program Rosetta to model TCRs from sequence, and implemented as a web server to generate models quickly that users can investigate in the browser and download. The method was benchmarked using a set of nonredundant recently released TCR crystal structures, showing accurate and favorable results. The TCRmodel server provides an easy-to-use interface to enable the community to obtain insights into TCRs of interest and can be combined with methods to model and design TCR recognition of antigens.

Topic

Immunology

Detail

  • Operation: Sequence feature detection

  • Software interface: Command-line user interface

  • Language: -

  • License: -

  • Cost: Free

  • Version name: -

  • Credit: This study was supported by state contract 14.604.21.0118; MCB program RAS; RFBR grants 14-04-01823, 13-04-01124, 14-04-01062; MK-4583.2015.4 and Dynasty Foundation Fellowship to IVZ; RFBR 15-34-21052 and MD-3044.2014.4 to DMC.

  • Input: -

  • Output: -

  • Contact: vdm.nazarov@gmail.com

  • Collection: -

  • Maturity: -

Publications

  • tcR: an R package for T cell receptor repertoire advanced data analysis.
  • Nazarov VI, Pogorelyy MV, Komech EA, Zvyagin IV, Bolotin DA, Shugay M, Chudakov DM, Lebedev YB, Mamedov IZ. tcR: an R package for T cell receptor repertoire advanced data analysis. BMC Bioinformatics. 2015 May 28;16(1):175. doi: 10.1186/s12859-015-0613-1. PMID: 26017500; PMCID: PMC4445501.
  • https://doi.org/10.1186/s12859-015-0613-1
  • PMID: 26017500
  • PMC: PMC4445501

Download and documentation


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