CTLPred protocols

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CTLPred specifications

Information


Unique identifier OMICS_05739
Name CTLPred
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


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Unique identifier OMICS_05739
Name CTLPred
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


Publication for CTLPred

CTLPred in pipelines

 (2)
2015
PMCID: 4293217
PMID: 25609983
DOI: 10.2147/AABC.S75250

[…] predicted the t-cell epitopes through the combined approach for the 12 mhc-i supertypes. on the basis of the combined score, five epitopes with top scores () were selected for further analysis. ctlpred server also predicted the t-cell epitopes based on an approach that combined artificial neural networks and support vector machines (). from the analysis, the common epitope–containing […]

2013
PMCID: 3722629
PMID: 23901192
DOI: 10.4103/0971-6866.112885

[…] similarly, the cytotoxic-t lymphocyte epitopes (ctl) related to h2 class-i was predicted with the web-based ctl-pred program (http://www.imtech.res.in/raghava/ctlpred).[], the h. pylori antigenic construct (hac) was assembled by fusing three selected segments into a single engineered molecule without any linker. the n-terminal of caga (np_207343.1), middle […]


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CTLPred in publications

 (9)
PMCID: 5582249
PMID: 28959348
DOI: 10.15171/ijb.1356

[…] binding to the mhc molecules. it estimates ic50 values for peptides binding to specific mhc molecules. some of the most frequent alleles were used for developing t cell epitope prediction. , ctlpred (http://www.imtech.res.in/raghava/ctlpred/), which is an ann and svm based ctl epitope prediction tool. , propred-i (http://www.imtech.res.in/raghava/propred1/-), which predicts mhc-i […]

PMCID: 5138612
PMID: 27922123
DOI: 10.1038/srep38577

[…] both based on the modelled three dimensional structure of lptd. cytotoxic t lymphocyte (ctl) epitope prediction was performed by the online software ctlpred based on the svm method (http://www.imtech.res.in/raghava/ctlpred)., cloning, expression and purification of lptd were conducted as described previously. in brief, the primer pair of f […]

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

[…] there were interesting outcomes from each individual algorithm of our pipeline that has been complied in the resource. for example, prkdc has 5 or more positive neoepitopes predicted using ctlpred and nhlapred, which were present in more than 800 unique cell lines ( and tables). also, there were more than 15 neopeptides found to be hla class i binders (using propred1) from recql4 […]

PMCID: 4838326
PMID: 27096425
DOI: 10.1371/journal.pone.0153771

[…] of epitopes in these 9mer peptides. this pipeline predict; i) b-cell epitopes using lbtope [], ii) mhc class i & ii binders using propred/propred1 [–] and iii) t-cell epitopes using software ctlpred, ifnepitope and il4pred [–]. we have selected the peptides with desired immune response; see figure b in for flow diagram used in this study., the architecture of database is shown […]

PMCID: 4293217
PMID: 25609983
DOI: 10.2147/AABC.S75250

[…] matrix was used for estimating tap transport efficiency. the threshold for epitope identification was set at 0.5 to maintain sensitivity and specificity of 0.89 and 0.94, respectively. finally, ctlpred was implemented additionally for further confirmation about the prediction with default parameters., t cell epitope prediction tools from immune epitope database and analysis resource […]


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

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