Introduction

Overview

VDJdb is a curated database of T-cell receptor (TCR) sequences with known antigen specificities. The primary goal of VDJdb is to facilitate access to existing information on T-cell receptor antigen specificities, i.e. the ability to recognize certain epitopes in a certain MHC contexts.

Our mission is to both aggregate the scarce TCR specificity information available so far and to create a curated repository to store such data. In addition to routine database updates providing the most up-to-date information fetched from recently published studies utilizing TCR specificity assays, we make our best to ensure data consistency and correct irregularities in TCR specificity reporting with a complex database validation scheme:

• We take into account all available information on experimental setup used to identify antigen-specific TCR sequences and assign a single confidence score to highligh most reliable records at the database generation stage.
• Each database record is also automatically checked against a database of V/J segment germline sequences to ensure standardized and consistent reporting of V-J junctions and CDR3 sequences that define T-cell clones.

Note

This software is intended for advanced users. We recommend using either the VDJdb web portal or the standalone VDJdb application with command line interface that can be found here.

See the Installing VDJdb server section for more details.