IEDB-AR: immune epitope database—analysis resource in 2019
Top Cited Papers
Open Access
- 22 May 2019
- journal article
- research article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 47 (W1), W502-W506
- https://doi.org/10.1093/nar/gkz452
Abstract
The Immune Epitope Database Analysis Resource (IEDB-AR, http://tools.iedb.org/) is a companion website to the IEDB that provides computational tools focused on the prediction and analysis of B and T cell epitopes. All of the tools are freely available through the public website and many are also available through a REST API and/or a downloadable command-line tool. A virtual machine image of the entire site is also freely available for non-commercial use and contains most of the tools on the public site. Here, we describe the tools and functionalities that are available in the IEDB-AR, focusing on the 10 new tools that have been added since the last report in the 2012 NAR webserver edition. In addition, many of the tools that were already hosted on the site in 2012 have received updates to newest versions, including NetMHC, NetMHCpan, BepiPred and DiscoTope. Overall, this IEDB-AR update provides a substantial set of updated and novel features for epitope prediction and analysis.Keywords
Funding Information
- National Institutes of Health (HHSN272201200010C, 75N93019C00001)
This publication has 35 references indexed in Scilit:
- NN-align. An artificial neural network-based alignment algorithm for MHC class II peptide binding predictionBMC Bioinformatics, 2009
- The PickPocket method for predicting binding specificities for receptors based on receptor pocket similarities: application to MHC-peptide bindingBioinformatics, 2009
- ElliPro: a new structure-based tool for the prediction of antibody epitopesBMC Bioinformatics, 2008
- Quantitative peptide binding motifs for 19 human and mouse MHC class I molecules derived using positional scanning combinatorial peptide librariesImmunome Research, 2008
- Prediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment methodBMC Bioinformatics, 2007
- Prediction of residues in discontinuous B‐cell epitopes using protein 3D structuresProtein Science, 2006
- A consensus epitope prediction approach identifies the breadth of murine TCD8+-cell responses to vaccinia virusNature Biotechnology, 2006
- Improved method for predicting linear B-cell epitopesImmunome Research, 2006
- Generating quantitative models describing the sequence specificity of biological processes with the stabilized matrix methodBMC Bioinformatics, 2005
- Generation of tissue-specific and promiscuous HLA ligand databases using DNA microarrays and virtual HLA class II matricesNature Biotechnology, 1999