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

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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 languageEnglish
JournalNucleic acids research
Volume47
Issue number1
Pages (from-to)W502-W506
ISSN0305-1048
DOIs
Publication statusPublished - 2019

Cite this

Dhanda, S. K., Mahajan, S., Paul, S., Yan, Z., Kim, H., Jespersen, M. C., ... Peters, B. (2019). IEDB-AR: immune epitope database-analysis resource in 2019. Nucleic acids research, 47(1), W502-W506. https://doi.org/10.1093/nar/gkz452
Dhanda, Sandeep Kumar ; Mahajan, Swapnil ; Paul, Sinu ; Yan, Zhen ; Kim, Haeuk ; Jespersen, Martin Closter ; Jurtz, Vanessa ; Andreatta, Massimo ; Greenbaum, Jason A. ; Marcatili, Paolo ; Sette, Alessandro ; Nielsen, Morten ; Peters, Bjoern. / IEDB-AR: immune epitope database-analysis resource in 2019. In: Nucleic acids research. 2019 ; Vol. 47, No. 1. pp. W502-W506.
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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",
volume = "47",
pages = "W502--W506",
journal = "Nucleic Acids Research",
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Dhanda, SK, Mahajan, S, Paul, S, Yan, Z, Kim, H, Jespersen, MC, Jurtz, V, Andreatta, M, Greenbaum, JA, Marcatili, P, Sette, A, Nielsen, M & Peters, B 2019, 'IEDB-AR: immune epitope database-analysis resource in 2019', Nucleic acids research, vol. 47, no. 1, pp. W502-W506. https://doi.org/10.1093/nar/gkz452

IEDB-AR: immune epitope database-analysis resource in 2019. / Dhanda, Sandeep Kumar; Mahajan, Swapnil; Paul, Sinu; Yan, Zhen; Kim, Haeuk; Jespersen, Martin Closter; Jurtz, Vanessa ; Andreatta, Massimo; Greenbaum, Jason A.; Marcatili, Paolo; Sette, Alessandro; Nielsen, Morten; Peters, Bjoern.

In: Nucleic acids research, Vol. 47, No. 1, 2019, p. W502-W506.

Research output: Contribution to journalJournal articleResearchpeer-review

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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

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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.

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DO - 10.1093/nar/gkz452

M3 - Journal article

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SP - W502-W506

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - 1

ER -

Dhanda SK, Mahajan S, Paul S, Yan Z, Kim H, Jespersen MC et al. IEDB-AR: immune epitope database-analysis resource in 2019. Nucleic acids research. 2019;47(1):W502-W506. https://doi.org/10.1093/nar/gkz452