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nHLAPred specifications

Information


Unique identifier OMICS_05738
Name nHLAPred
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

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Publication for nHLAPred

nHLAPred citations

 (10)
library_books

In silico analysis to identify vaccine candidates common to multiple serotypes of Shigella and evaluation of their immunogenicity

2017
PLoS One
PMCID: 5540609
PMID: 28767653
DOI: 10.1371/journal.pone.0180505

[…] t was kept at default value of 0.35 for Bepipred and at 2.38 for Bcepred. The residues with scores above the threshold are predicted as B-cell epitopes. T-cell epitope predictions were carried out by nHLAPRED (http://www.imtech.res.in/raghava/nhlapred/) [], IEDB (Immune Epitope Database) (http://tools.iedb.org/mhci/) [] for MHC class-I binders and by PROPRED (http://www.imtech.res.in/raghava/propr […]

call_split

Antibody Engineering for Pursuing a Healthier Future

2017
Front Microbiol
PMCID: 5368232
PMID: 28400756
DOI: 10.3389/fmicb.2017.00495
call_split See protocol

[…] and the term can be defined as “the application of computer tools to handle biological information.” Several computational and bioinformatics tools for prediction of antibody binders include RANKPEP, nHLAPred, NetMHC, kernel-based inter-allele peptide binding prediction system (KISS) with support vector machine (SVM; Bhasin and Raghava, ; Lundegaard et al., ). Moreover, these tools use databases t […]

library_books

A Platform for Designing Genome Based Personalized Immunotherapy or Vaccine against Cancer

2016
PLoS One
PMCID: 5104390
PMID: 27832200
DOI: 10.1371/journal.pone.0166372

[…] In past, a number of methods have been reported for predicting HLA class I binders including SYFPEITHI [], NetMHC [], ProPred1 [], and nHLAPred []. In the present study, we used standalone version of ProPred1 and nHLAPred for predicting HLA class I binders; both the algorithms predict promiscuous HLA class I binders. While, ProPred1 […]

library_books

Machine Learning Methods for Predicting HLA–Peptide Binding Activity

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

[…] Sparse encoding is simple but widely used by servers such as ANNPred/nHLAPred, MHC2PRED, NetMHC/NetMHCII,, NetMHC-pan/NetMHCIIpan,, SVMHC,, and SVRMHC. The concept of sparse encoding is similar to dummy variables in the machine learning field. Since each position withi […]

call_split

Immunogenicity Evaluation of a Rationally Designed Polytope Construct Encoding HLA A*0201 Restricted Epitopes Derived from Leishmania major Related Proteins in HLA A2/DR1 Transgenic Mice: Steps toward Polytope Vaccine

2014
PLoS One
PMCID: 4195657
PMID: 25310094
DOI: 10.1371/journal.pone.0108848
call_split See protocol

[…] and AD (one alanine and one aspartic acid residues) (a total of 120 different arrangements for each protein) were analysed with two common on-line algorithms for proteasome cleavage: NetCTL 1.2 and nHLApred . This approach was followed for peptide arrangements of each individual protein and then the most preferable arrangements satisfying both basic criteria were selected to be combined again in […]

library_books

Characterization of a Cross Reactive, Immunodominant and HLA Promiscuous Epitope of Mycobacterium tuberculosis Specific Major Antigenic Protein PPE68

2014
PLoS One
PMCID: 4138092
PMID: 25136958
DOI: 10.1371/journal.pone.0103679

[…] INTIPIA-136, is present in several pathogenic mycobacteria. Furthermore, the full length peptide 121–145 as well as peptide 127–136 were also suggested to possess CD8+ cytotoxic T cell epitopes using nHLAPred/Compred and ProPred-I (). Since the involvement of both CD4+ and CD8+ T cells is suggested for optimal protection against mycobacterial disease , , the use of crossreactive peptide 121-VLTA […]


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nHLAPred institution(s)
Institute of Microbial Technology, Chandigarh, India

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