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PIRD: Pan Immune Repertoire Database
Open accessPublished version of a preprint
Abstract
MOTIVATION: T and B cell receptors (TCRs and BCRs) play a pivotal role in the adaptive immune system by recognizing an enormous variety of external and internal antigens. Understanding these receptors is critical for exploring the process of immunoreaction and exploiting potential applications in immunotherapy and antibody drug design. Although a large number of samples have had their TCR and BCR repertoires sequenced using high-throughput sequencing in recent years, very few databases have been constructed to store these kinds of data. To resolve this issue, we developed a database. RESULTS: We developed a database, the Pan Immune Repertoire Database (PIRD), located in China National GeneBank (CNGBdb), to collect and store annotated TCR and BCR sequencing data, including from Homo sapiens and other species. In addition to data storage, PIRD also provides functions of data visualization and interactive online analysis. Additionally, a manually curated database of TCRs and BCRs targeting known antigens (TBAdb) was also deposited in PIRD. AVAILABILITY AND IMPLEMENTATION: PIRD can be freely accessed at https://db.cngb.org/pird.
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“Efforts have been made to create standardized, publicly available repositories for these sequencing data [8,9].”
From Computational and artificial intelligence-based methods for antibody development (2023) · cites this paper as [9]
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Metadata
- Authors
- Zhang, W., Wang, L., Liu, K., Wei, X., Yang, K., Du, W., Wang, S., Guo, N., Ma, C., Luo, L., Wu, J., Lin, L., Yang, F., Gao, F., Wang, X., Li, T., Zhang, R., Saksena, N. K., Yang, H., Wang, J., Fang, L., Hou, Y., Xu, X., & Liu, X.
- Affiliations
- BGI Group (China) (CN)
- Corresponding author
- Liu, Xiao
- ORCID
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2019-08-02
- Volume
- 36
- Issue
- 3
- Pages
- 897-903
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W2965921152
- Cited by
- 166
- References
- 53
- Citations by year
- 2026: 19 · 2025: 34 · 2024: 38 · 2023: 34 · 2022: 17 · 2021: 15 · 2020: 8 · 2019: 1
- FWCI
- 4.07
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- academic.oup.com/journals/pages/open_access/funder_policies/chorus/standard_publication_model (vor)
- Locations
- Bioinformatics (publishedVersion)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion)
- PubMed (publishedVersion)
- Research at the University of Copenhagen (University of Copenhagen) (submittedVersion, cc-by)
- Funders
- Shenzhen Municipal Government of China (JCYJ20160510141910129)
- Topics
- Life Sciences › Immunology and Microbiology › Immunology › T-cell and B-cell Immunology
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › vaccines and immunoinformatics approaches
- Physical Sciences › Computer Science › Artificial Intelligence › Artificial Immune Systems Applications
- Keywords
- T cell receptor repertoire, B cell receptor repertoire, adaptive immunity, immunotherapy, data visualization, human
- MeSH terms
- Antigens, Humans, Immunotherapy, Receptors, Antigen, T-Cell, Databases, Factual, High-Throughput Nucleotide Sequencing
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