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Protocols

PEPVAC specifications

Information


Unique identifier OMICS_21158
Name PEPVAC
Alternative name Promiscuous EPitope-based VACcine
Interface Web user interface
Restrictions to use None
Input data A single or various protein sequences.
Input format FASTA
Computer skills Basic
Stability Stable
Maintained Yes

Maintainers


  • person_outline Pedro Reche
  • person_outline Ellis Reinherz
  • person_outline Pedro Reche

Publication for Promiscuous EPitope-based VACcine

PEPVAC citations

 (7)
library_books

Mapping HLA A2, A3 and B7 supertype restricted T cell epitopes in the ebolavirus proteome

2018
BMC Genomics
PMCID: 5780746
PMID: 29363421
DOI: 10.1186/s12864-017-4328-8

[…] des [–], and allow the prediction for a wide range of HLA alleles. Prediction in the context of HLA supertypes is offered by a number of the tools, such as Hotspot Hunter [], MAPPP [], MULTIPRED2 [], PEPVAC [], and NetMHC [], among others. Earlier studies had elucidated putative T-cell epitopes of individual EBOV proteins [–] by use of bioinformatics tools, such as SYFPEITHI [, ], BIMAS [, ], IEDB […]

library_books

Fundamentals and Methods for T and B Cell Epitope Prediction

2017
J Immunol Res
PMCID: 5763123
PMID: 29445754
DOI: 10.1155/2017/2680160

[…] ge using a limited number of peptides. Currently, several web-based methods allow the prediction of promiscuous peptide-binding to HLA supertypes for epitope vaccine design including MULTIPRED [] and PEPVAC [] (). A method to identify promiscuous peptide-binding beyond HLA supertypes was developed and implemented by Molero-Abraham et al. [] with the name of EPISOPT. EPISOPT predicts HLA I presenta […]

library_books

Analysis of viral diversity for vaccine target discovery

2017
BMC Med Genomics
PMCID: 5763473
PMID: 29322922
DOI: 10.1186/s12920-017-0301-2

[…] ubsequent clinical studies, such as validation in monkeys.Putative HLA class I supertype restricted peptides within the potential candidate vaccine targets are identified by use of NetCTL [], ARB [], PEPVAC [] and MULTIPRED2 [–], and for class II restricted by use of MULTIPRED2 and TEPITOPE []. ARB and TEPITOPE do not directly provide the HLA supertype binders, and the users would have to identify […]

library_books

Model for Vaccine Design by Prediction of B Epitopes of IEDB Given Perturbations in Peptide Sequence, In Vivo Process, Experimental Techniques, and Source or Host Organisms

2014
J Immunol Res
PMCID: 3987976
PMID: 24741624
DOI: 10.1155/2014/768515

[…] ey include skin vaccine adjuvants and sensitizers [–], drugs and their activity/toxicity protein targets in the immune system [], and epitopes [–]. Moreover, Reche and Reinherz [] implemented PEPVAC (promiscuous epitope-based vaccine), a web server for the formulation of multiepitope vaccines that predict peptides binding to five distinct HLA class I supertypes (A2, A3, B7, A24, and B15). PEPVAC c […]

library_books

An effective and effecient peptide binding prediction approach for a broad set of HLA DR molecules based on ordered weighted averaging of binding pocket profiles

2013
Proteome Sci
PMCID: 3908610
PMID: 24565049
DOI: 10.1186/1477-5956-11-S1-S15

[…] synthesis of NN-align [], NetMHCpan and NetMHCIIpan. MULTIPRED2 [] can perform prediction for 1077 HLAI and HLA-II alleles and 26 HLA supertypes. It can be regarded as a combination of the MULTIPRED, PEPVAC, NetMHCpan and NetMHCIIpan methods. The TEPITOPEpan [] method, which builds on the TEPITOPE and PickPocket [] methods, enables prediction for more than 700 HLA-DR molecules.Here, we propose a n […]

library_books

HIV 2 and its role in conglutinated approach towards Acquired Immunodeficiency Syndrome (AIDS) Vaccine Development

2013
Springerplus
PMCID: 3586397
PMID: 23483108
DOI: 10.1186/2193-1801-2-7

[…] ed database comprising over 4000 peptide sequences known to bind MHC molecules. Entries are compiled from published reports as well as from direct submissions of experimental data (De Groot et al. ). PEPVAC (Promiscuous EPitope-based VACcine), optimized for the formulation of multi-epitope vaccines with broad population coverage (Reche & Reinherz ). Vaxign is the web-based vaccine design system fo […]

Citations

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PEPVAC institution(s)
Laboratory of Immunobiology and Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA; Department of Medicine, Harvard Medical School, Boston, MA, USA
PEPVAC funding source(s)
Supported by NIH grant AI50900 and the Molecular Immunology Foundation.

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