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Protocols

MHCPred specifications

Information


Unique identifier OMICS_17786
Name MHCPred
Interface Web user interface
Restrictions to use None
Programming languages Perl
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Darren Flower

Publications for MHCPred

MHCPred citations

 (29)
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Coordination of Bactericidal and Iron Regulatory Functions of Hepcidin in Innate Antimicrobial Immunity in a Zebrafish Model

2017
Sci Rep
PMCID: 5487360
PMID: 28655927
DOI: 10.1038/s41598-017-04069-x
call_split See protocol

[…] VPTPTTRS) were chemically synthesized and purified through HPLC (C18 RP-HPLC) by the Bank Peptide Company (Hefei, China). The antigenic epitope peptide of OmpA was predicted by the online ABCpred and MHCPred programs. Both of the hepcidin and OmpA peptides were coupled to keyhole limpet hemocyanin (KLH, Bank Peptide Company, Hefei, China) at a ratio of 10 mg:10 mg (carrier/peptide), respectively. […]

library_books

GAKG RGEKG an Epitope That Provokes Immune Cross Reactivity between Prevotella sp. and Human Collagen: Evidence of Molecular Mimicry in Chronic Periodontitis

2016
PMCID: 5220385
PMID: 28116146
DOI: 10.1155/2016/5472320

[…] The MHCpred free program (http://www.ddg-pharmfac.net/mhcpred/MHCPred/) was used to evaluate the affinity of the found sequence of the Prevotella sp. hypothetical protein to be presented by the complex of […]

library_books

Bioinformatic prediction of the epitopes of Echinococcus granulosus antigen 5

2016
PMCID: 5351307
PMID: 28357070
DOI: 10.3892/br.2016.827

[…] LA-A*2401 cytotoxic T lymphocyte restricted epitopes of platelet membrane glycoprotein IIb/IIIa (GP IIb/IIIa) antibody of human and mice were predicted using SYFPEITHI, RANKPEP, BIMAS, SVMHC, PREDEP, MHCPRED and PROPRED software, and the T cell epitopes of GP IIb/IIIa antibody were predicted. In a different study conducted by Shen et al (), the secondary structure and surface characteristics of th […]

library_books

Pangenome and immuno proteomics analysis of Acinetobacter baumannii strains revealed the core peptide vaccine targets

2016
BMC Genomics
PMCID: 5025611
PMID: 27634541
DOI: 10.1186/s12864-016-2951-4

[…] imated by using NetSurfP []. Vaxijen v2.0 was used to check the antigenicity of the epitopes (threshold value >0.4) []. The epitopes having values more than 0.4 were considered potentially antigenic. MHCpred was used to calculate the half maximal inhibition concentration (IC50) score for DRB1*0101 (a common and prevalent allele in worldwide population) [, ]. Various in silico reverse vaccinology s […]

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In Silico Design of a Chimeric Protein Containing Antigenic Fragments of Helicobacter pylori; A Bioinformatic Approach

2016
PMCID: 4899534
PMID: 27335622
DOI: 10.2174/1874285801610010097
call_split See protocol

[…] rotein sequence. These tools at IEDB (www.cbs.dtu.dk/services/NetCTL predict the half maximal (50%) inhibitory concentration (IC50) values for peptides binding to specific MHC molecules. In addition, MHCPred (www.jenner.ac.uk/MHCPred) and SYFPEITHI servers (www.syfpeithi.de/bin/ MHCServer.dll/EpitopePrediction.htm) to predict epitope candidates based on the processing of peptides in the cell were […]

library_books

Machine Learning Methods for Predicting HLA–Peptide Binding Activity

2015
Bioinform Biol Insights
PMCID: 4603527
PMID: 26512199
DOI: 10.4137/BBI.S29466

[…] set of 48 Class I MHCs. From the prospective of AUC, their ANN model (AUC = 0.957) outperformed their PSSM-based models (AUC = 0.934–0.952). They also benchmarked 16 publicly available tools such as MHCPRED, MULTIPRED,, NetMHC, and SVMHC., Five Class I HLAs were evaluated but only two of them had been predicted by all these methods. For HLA-A*02:01, the performance was NetMHC (ANN) > MULTIPRED (A […]

Citations

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MHCPred institution(s)
Edward Jenner Institute for Vaccine Research, Compton, Berkshire, UK
MHCPred funding source(s)
This work was supported by GlaxoSmithKline, the Medical Research Council, the Biotechnology and Biological Sciences Research Council and the UK Department of Health.

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