TAPPred protocols

View TAPPred computational protocol

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TAPPred specifications

Information


Unique identifier OMICS_05744
Name TAPPred
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


Publications for TAPPred

TAPPred in pipelines

 (6)
2017
PMCID: 5450251
PMID: 28584450
DOI: 10.6026/97320630013094

[…] value of 0.5., to predict the candidate epitope(s) based on the processing of the peptide(s) in vivo, the transporter of antigenic peptides (tap) proteins' transport efficiency was tested using tappred server program []. the prediction approach used in this study was cascade support vector machines (svm), a prediction that is based on the sequence and features of amino acids […]

2017
PMCID: 5602290
PMID: 28943728
DOI: 10.6026/97320630013231

[…] hfrs. the epitopes that bind to class i hla supertypes that is also cleaved only at the flanking regions by human proteasomes, binding to tap efficiently was identified by the programs mappp and tappred respectively. this study enabled the prediction of mhc class i binding t- cell epitopes from hantaviruses towards development of a designer peptide vaccine., all available complete s and m […]

2017
PMCID: 5602290
PMID: 28943728
DOI: 10.6026/97320630013231

[…] the algorithms in the program were earlier implemented in fragpredict. minimum possibility for cleavage after a single residue and for cleavage of a fragment was set to a default value of 0.5., the tappred server program [] was used to predict the candidate epitope(s) based on the predicted processing of the peptide(s) in vivo, the transporter of antigenic peptides (tap) proteins' transport […]

2016
PMCID: 4852757
PMID: 27147821
DOI: 10.4137/BBI.S38378

[…] the prediction of proteosomal cleavage h5n1 virus was analyzed by using paproc-i tools (http://www.paproc.de/), while the transport antigen presentation (tap) binding was predicted by using tappred server (http://www.imtech.res.in/raghava/tappred/)., propred and netmhcpan servers were used to identify the bond region on the class i hla of the antigen.,, the selected epitopes […]

2016
PMCID: 5019413
PMID: 27618304
DOI: 10.1371/journal.pone.0162808

[…] tap affinity and in vivo immunogenicity (). no difference was observed in predicted proteasomal cleavage by netchop 3.1 (81% for miha versus 81% for allelic variants, p = 1.000) and tap affinity by tappred (40% high, 53% intermediate and 8% low affinity peptides for miha versus 47% high, 43% intermediate and 9% low affinity peptides for allelic variants). moreover, immunogenicity scores […]


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TAPPred in publications

 (9)
PMCID: 5712781
PMID: 29225429
DOI: 10.6026/97320630013366

[…] the algorithms in the program were earlier implemented in fragpredict. minimum possibility for cleavage after a single residue and for cleavage of a fragment was set to default value of 0.5., tappred server program [] was used to predict the candidate epitope(s) based on the predicted processing of the peptide(s) in vivo, the transporter of antigenic peptides (tap) proteins' transport […]

PMCID: 5602290
PMID: 28943728
DOI: 10.6026/97320630013231

[…] hfrs. the epitopes that bind to class i hla supertypes that is also cleaved only at the flanking regions by human proteasomes, binding to tap efficiently was identified by the programs mappp and tappred respectively. this study enabled the prediction of mhc class i binding t- cell epitopes from hantaviruses towards development of a designer peptide vaccine., all available complete s and m […]

PMCID: 5450251
PMID: 28584450
DOI: 10.6026/97320630013094

[…] value of 0.5., to predict the candidate epitope(s) based on the processing of the peptide(s) in vivo, the transporter of antigenic peptides (tap) proteins' transport efficiency was tested using tappred server program []. the prediction approach used in this study was cascade support vector machines (svm), a prediction that is based on the sequence and features of amino acids […]

PMCID: 5091093
PMID: 27812281
DOI: 10.4137/DTI.S38458

[…] from their protein of polysaccharide capsule. b-cell epitopes were predicted by using bcpred, while t-cell epitope for major histocompatibility complex (mhc) class i was predicted using paproc, tappred, and immune epitope database. immune epitope database was also used to predict t-cell epitope for mhc class ii. population coverage and molecular docking simulation were predicted […]

PMCID: 5019413
PMID: 27618304
DOI: 10.1371/journal.pone.0162808

[…] peptide-hla class i complex, proteasomal cleavage at the c-terminus, affinity for tap and in vivo immunogenicity, the online available algorithms netmhcpan 2.8[], netmhcstab 1.0 [], netchop 3.1 [], tappred [] and the mhc i immunogenicity tool from the immune epitope database(iedb) [] were used, respectively. in addition, netctlpan 1.1 [] was used to integrate predicted hla class i binding […]


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TAPPred institution(s)
Institute of Microbial Technology, Chandigarh, India; UAMS, BRCII, Little Rock, AR, USA

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