The immune epitope database 2.0
Open accessAbstract
The Immune Epitope Database (IEDB, www.iedb.org) provides a catalog of experimentally characterized B and T cell epitopes, as well as data on Major Histocompatibility Complex (MHC) binding and MHC ligand elution experiments. The database represents the molecular structures recognized by adaptive immune receptors and the experimental contexts in which these molecules were determined to be immune epitopes. Epitopes recognized in humans, nonhuman primates, rodents, pigs, cats and all other tested species are included. Both positive and negative experimental results are captured. Over the course of 4 years, the data from 180,978 experiments were curated manually from the literature, which covers approximately 99% of all publicly available information on peptide epitopes mapped in infectious agents (excluding HIV) and 93% of those mapped in allergens. In addition, data that would otherwise be unavailable to the public from 129,186 experiments were submitted directly by investigators. The curation of epitopes related to autoimmunity is expected to be completed by the end of 2010. The database can be queried by epitope structure, source organism, MHC restriction, assay type or host organism, among other criteria. The database structure, as well as its querying, browsing and reporting interfaces, was completely redesigned for the IEDB 2.0 release, which became publicly available in early 2009.
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The increasing number of structural, sequence and experimental data on antibodies being deposited in the public domain provides the necessary foundation for improving data-driven methods.
“The increasing number of structural [16], sequence [17] and experimental data [18–21] on antibodies being deposited in the public domain provides the necessary foundation for improving such data-driven methods.”
From Computational approaches to therapeutic antibody design: established methods and emerging trends (2020) · cites this paper as [18]
Other resources such as the Immune Epitope Database (IEDB) link structural information to experimentally derived epitope data.
“Other resources such as the Immune Epitope Database (IEDB) [18] link structural information to experimentally derived epitope data.”
From Computational approaches to therapeutic antibody design: established methods and emerging trends (2020) · cites this paper as [18]
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“Other resources such as the Immune Epitope Database (IEDB) [18] link structural information to experimentally derived epitope data.”
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- Authors
- Vita, R., Zarebski, L., Greenbaum, J. A., Emami, H., Hoof, I., Salimi, N., Damle, R., Sette, A., & Peters, B.
- Affiliations
- La Jolla Institute for Immunology (US)
- Corresponding author
- Vita, Randi
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2009-11-10
- Volume
- 38
- Issue
- suppl_1
- Pages
- D854-D862
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- PMC
- PMC2808938
- OpenAlex
- W2028339001
- Cited by
- 631
- References
- 20
- Citations by year
- 2025: 9 · 2024: 8 · 2023: 17 · 2022: 14 · 2021: 21 · 2020: 27 · 2019: 24 · 2018: 32 · 2017: 28 · 2016: 49 · 2015: 70 · 2014: 86 · 2013: 90 · 2012: 59
- FWCI
- 20.65
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- Nucleic Acids Research (publishedVersion, cc-by-nc)
- PubMed Central (publishedVersion, cc-by-nc)
- PubMed (publishedVersion)
- HighWire Press Open Archive (submittedVersion)
- Technical University of Denmark, DTU Orbit (Technical University of Denmark, DTU) (submittedVersion, cc-by-nc)
- Funders
- National Institutes of Health
- U.S. Public Health Service (HHSN2662004000 0 6C)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › vaccines and immunoinformatics approaches
- Life Sciences › Immunology and Microbiology › Immunology › Immunotherapy and Immune Responses
- Life Sciences › Immunology and Microbiology › Immunology › T-cell and B-cell Immunology
- Keywords
- IEDB, B-cell epitopes, T cell epitopes, MHC binding, peptide epitopes, infectious agents, allergens, autoimmunity, database curation, database redesign
- MeSH terms
- Animals, Epitopes, Communicable Diseases, Humans, Immune System, Immunogenetics, Major Histocompatibility Complex, Peptides, Proteins, Software, Information Storage and Retrieval, Computational Biology, Internet, Databases, Genetic, Databases, Protein
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