期刊
NUCLEIC ACIDS RESEARCH
卷 46, 期 D1, 页码 D419-D427出版社
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkx760
关键词
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资金
- Pirogov Russian National Research Medical University
- European Union's Horizon Research and Innovation Programme [633592]
- Ministry of Education, Youth and Sports of the Czech Republic under CEITEC [LQ1601]
- Wellcome Trust
- Cancer Research Wales PhD Studentship
- Skolkovo Institute of Science and Technology
- Wellcome Trust [100326/Z/12/Z] Funding Source: researchfish
- H2020 Societal Challenges Programme [633592] Funding Source: H2020 Societal Challenges Programme
The ability to decode antigen specificities encapsulated in the sequences of rearranged T-cell receptor (TCR) genes is critical for our understanding of the adaptive immune system and promises significant advances in the field of translational medicine. Recent developments in high-throughput sequencing methods (immune repertoire sequencing technology, or RepSeq) and single-cell RNA sequencing technology have allowed us to obtain huge numbers of TCR sequences from donor samples and link them to T-cell phenotypes. However, our ability to annotate these TCR sequences still lags behind, owing to the enormous diversity of the TCR repertoire and the scarcity of available data on T-cell specificities. In this paper, we present VDJdb, a database that stores and aggregates the results of published T-cell specificity assays and provides a universal platform that couples antigen specificities with TCR sequences. We demonstrate that VDJdb is a versatile instrument for the annotation of TCR repertoire data, enabling a concatenated view of antigen-specific TCR sequence motifs. VDJdb can be accessed at https://vdjdb.cdr3. net and https://github.com/antigenomics/vdjdb-db.
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