IEDB-AR: immune epitope database-analysis resource in 2019

Sandeep Kumar Dhanda; Swapnil Mahajan; Sinu Paul; Zhen Yan; Haeuk Kim; Martin Closter Jespersen; Vanessa  Jurtz; Massimo Andreatta; Jason A. Greenbaum; Paolo Marcatili; Alessandro Sette; Morten Nielsen; Bjoern Peters

doi:10.1093/nar/gkz452

IEDB-AR: immune epitope database-analysis resource in 2019

Sandeep Kumar Dhanda, Swapnil Mahajan, Sinu Paul, Zhen Yan, Haeuk Kim, Martin Closter Jespersen, Vanessa Jurtz, Massimo Andreatta, Jason A. Greenbaum, Paolo Marcatili, Alessandro Sette, Morten Nielsen, Bjoern Peters^*

^*Corresponding author for this work

La Jolla Institute for Allergy & Immunology

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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.

Original language	English
Journal	Nucleic Acids Research
Volume	47
Issue number	1
Pages (from-to)	W502-W506
ISSN	0305-1048
DOIs	https://doi.org/10.1093/nar/gkz452
Publication status	Published - 2019

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title = "IEDB-AR: immune epitope database-analysis resource in 2019",

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.",

author = "Dhanda, {Sandeep Kumar} and Swapnil Mahajan and Sinu Paul and Zhen Yan and Haeuk Kim and Jespersen, {Martin Closter} and Vanessa Jurtz and Massimo Andreatta and Greenbaum, {Jason A.} and Paolo Marcatili and Alessandro Sette and Morten Nielsen and Bjoern Peters",

year = "2019",

doi = "10.1093/nar/gkz452",

language = "English",

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T1 - IEDB-AR: immune epitope database-analysis resource in 2019

AU - Dhanda, Sandeep Kumar

AU - Mahajan, Swapnil

AU - Paul, Sinu

AU - Yan, Zhen

AU - Kim, Haeuk

AU - Jespersen, Martin Closter

AU - Jurtz, Vanessa

AU - Andreatta, Massimo

AU - Greenbaum, Jason A.

AU - Marcatili, Paolo

AU - Sette, Alessandro

AU - Nielsen, Morten

AU - Peters, Bjoern

PY - 2019

Y1 - 2019

N2 - 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.

AB - 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.

U2 - 10.1093/nar/gkz452

DO - 10.1093/nar/gkz452

M3 - Journal article

C2 - 31114900

SN - 0305-1048

VL - 47

SP - W502-W506

JO - Nucleic Acids Research

JF - Nucleic Acids Research

IS - 1

ER -

IEDB-AR: immune epitope database-analysis resource in 2019

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