McPAS-TCR: A manually curated catalogue of pathology-associated T cell receptor sequences

Nili Tickotsky, Tal Sagiv, Jaime Prilusky, Eric Shifrut, Nir Friedman

Research output: Contribution to journalArticlepeer-review

215 Scopus citations

Abstract

Motivation: While growing numbers of T cell receptor (TCR) repertoires are being mapped by high-throughput sequencing, existing methods do not allow for computationally connecting a given TCR sequence to its target antigen, or relating it to a specific pathology. As an alternative, a manually-curated database can relate TCR sequences with their cognate antigens and associated pathologies based on published experimental data. Results: We present McPAS-TCR, a manually curated database of TCR sequences associated with various pathologies and antigens based on published literature. Our database currently contains more than 5000 sequences of TCRs associated with various pathologic conditions (including pathogen infections, cancer and autoimmunity) and their respective antigens in humans and in mice. A web-based tool allows for searching the database based on different criteria, and for finding annotated sequences from the database in users data. The McPAS-TCR website assembles information from a large number of studies that is very hard to dissect otherwise. Initial analyses of the data provide interesting insights on pathology-associated TCR sequences. Availability and implementation: Free access at http://friedmanlab.weizmann.ac.il/McPAS-TCR/.

Original languageEnglish
Pages (from-to)2924-2929
Number of pages6
JournalBioinformatics
Volume33
Issue number18
DOIs
StatePublished - 15 Sep 2017
Externally publishedYes

Bibliographical note

Publisher Copyright:
© 2017 The Author.

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