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MULTIPRED2: A computational system for large-scale identification of peptides predicted to bind to HLA supertypes and alleles
MULTIPRED2 is a computational system for facile prediction of peptide binding to multiple alleles belonging to human leukocyte antigen (HLA) class I and class II DR molecules. It enables prediction of peptide binding to products of individual HLA alleles, combination of alleles, or HLA supertypes. N...
Autores principales: | , , , , , , , |
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Formato: | Texto |
Lenguaje: | English |
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Elsevier B.V.
2011
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3090484/ https://www.ncbi.nlm.nih.gov/pubmed/21130094 http://dx.doi.org/10.1016/j.jim.2010.11.009 |
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author | Zhang, Guang Lan DeLuca, David S. Keskin, Derin B. Chitkushev, Lou Zlateva, Tanya Lund, Ole Reinherz, Ellis L. Brusic, Vladimir |
author_facet | Zhang, Guang Lan DeLuca, David S. Keskin, Derin B. Chitkushev, Lou Zlateva, Tanya Lund, Ole Reinherz, Ellis L. Brusic, Vladimir |
author_sort | Zhang, Guang Lan |
collection | PubMed |
description | MULTIPRED2 is a computational system for facile prediction of peptide binding to multiple alleles belonging to human leukocyte antigen (HLA) class I and class II DR molecules. It enables prediction of peptide binding to products of individual HLA alleles, combination of alleles, or HLA supertypes. NetMHCpan and NetMHCIIpan are used as prediction engines. The 13 HLA Class I supertypes are A1, A2, A3, A24, B7, B8, B27, B44, B58, B62, C1, and C4. The 13 HLA Class II DR supertypes are DR1, DR3, DR4, DR6, DR7, DR8, DR9, DR11, DR12, DR13, DR14, DR15, and DR16. In total, MULTIPRED2 enables prediction of peptide binding to 1077 variants representing 26 HLA supertypes. MULTIPRED2 has visualization modules for mapping promiscuous T-cell epitopes as well as those regions of high target concentration – referred to as T-cell epitope hotspots. Novel graphic representations are employed to display the predicted binding peptides and immunological hotspots in an intuitive manner and also to provide a global view of results as heat maps. Another function of MULTIPRED2, which has direct relevance to vaccine design, is the calculation of population coverage. Currently it calculates population coverage in five major groups in North America. MULTIPRED2 is an important tool to complement wet-lab experimental methods for identification of T-cell epitopes. It is available at http://cvc.dfci.harvard.edu/multipred2/. |
format | Text |
id | pubmed-3090484 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2011 |
publisher | Elsevier B.V. |
record_format | MEDLINE/PubMed |
spelling | pubmed-30904842012-11-30 MULTIPRED2: A computational system for large-scale identification of peptides predicted to bind to HLA supertypes and alleles Zhang, Guang Lan DeLuca, David S. Keskin, Derin B. Chitkushev, Lou Zlateva, Tanya Lund, Ole Reinherz, Ellis L. Brusic, Vladimir J Immunol Methods Article MULTIPRED2 is a computational system for facile prediction of peptide binding to multiple alleles belonging to human leukocyte antigen (HLA) class I and class II DR molecules. It enables prediction of peptide binding to products of individual HLA alleles, combination of alleles, or HLA supertypes. NetMHCpan and NetMHCIIpan are used as prediction engines. The 13 HLA Class I supertypes are A1, A2, A3, A24, B7, B8, B27, B44, B58, B62, C1, and C4. The 13 HLA Class II DR supertypes are DR1, DR3, DR4, DR6, DR7, DR8, DR9, DR11, DR12, DR13, DR14, DR15, and DR16. In total, MULTIPRED2 enables prediction of peptide binding to 1077 variants representing 26 HLA supertypes. MULTIPRED2 has visualization modules for mapping promiscuous T-cell epitopes as well as those regions of high target concentration – referred to as T-cell epitope hotspots. Novel graphic representations are employed to display the predicted binding peptides and immunological hotspots in an intuitive manner and also to provide a global view of results as heat maps. Another function of MULTIPRED2, which has direct relevance to vaccine design, is the calculation of population coverage. Currently it calculates population coverage in five major groups in North America. MULTIPRED2 is an important tool to complement wet-lab experimental methods for identification of T-cell epitopes. It is available at http://cvc.dfci.harvard.edu/multipred2/. Elsevier B.V. 2011-11-30 2010-12-02 /pmc/articles/PMC3090484/ /pubmed/21130094 http://dx.doi.org/10.1016/j.jim.2010.11.009 Text en Copyright © 2010 Elsevier B.V. All rights reserved. Since January 2020 Elsevier has created a COVID-19 resource centre with free information in English and Mandarin on the novel coronavirus COVID-19. The COVID-19 resource centre is hosted on Elsevier Connect, the company's public news and information website. Elsevier hereby grants permission to make all its COVID-19-related research that is available on the COVID-19 resource centre - including this research content - immediately available in PubMed Central and other publicly funded repositories, such as the WHO COVID database with rights for unrestricted research re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for free by Elsevier for as long as the COVID-19 resource centre remains active. |
spellingShingle | Article Zhang, Guang Lan DeLuca, David S. Keskin, Derin B. Chitkushev, Lou Zlateva, Tanya Lund, Ole Reinherz, Ellis L. Brusic, Vladimir MULTIPRED2: A computational system for large-scale identification of peptides predicted to bind to HLA supertypes and alleles |
title | MULTIPRED2: A computational system for large-scale identification of peptides predicted to bind to HLA supertypes and alleles |
title_full | MULTIPRED2: A computational system for large-scale identification of peptides predicted to bind to HLA supertypes and alleles |
title_fullStr | MULTIPRED2: A computational system for large-scale identification of peptides predicted to bind to HLA supertypes and alleles |
title_full_unstemmed | MULTIPRED2: A computational system for large-scale identification of peptides predicted to bind to HLA supertypes and alleles |
title_short | MULTIPRED2: A computational system for large-scale identification of peptides predicted to bind to HLA supertypes and alleles |
title_sort | multipred2: a computational system for large-scale identification of peptides predicted to bind to hla supertypes and alleles |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3090484/ https://www.ncbi.nlm.nih.gov/pubmed/21130094 http://dx.doi.org/10.1016/j.jim.2010.11.009 |
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