CBTOPE protocols

View CBTOPE computational protocol

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CBTOPE specifications

Information


Unique identifier OMICS_06714
Name CBTOPE
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for CBTOPE

CBTOPE in publications

 (22)
PMCID: 5862889
PMID: 29563531
DOI: 10.1038/s41598-018-23029-7

[…] families in the studied genomes were taken from orthomcl results., sequences of immunoreactive proteins were searched for potential epitopes using 15 predictive approaches: aap, bcpred, bepipred, cbtope, cobepro, fbcpred, igpred, svmtrip, as well as bcepred based on seven amino acid physico-chemical scales, hydrophilicity, flexibility, accessibility, turns, antigenic propensity, exposed […]

PMCID: 5763123
PMID: 29445754
DOI: 10.1155/2017/2680160

[…] [] ()., as remarked before, methods for conformational b-cell epitope prediction generally require the 3d-structure of the antigen. exceptionally, however, ansari and raghava [] developed a method (cbtope) for the identification of conformational b-cell epitope from the primary sequence of the antigen. cbtope is based on svm and trained on physicochemical and sequence-derived features […]

PMCID: 5374683
PMID: 28361709
DOI: 10.1186/s12864-017-3493-0

[…] a data set with computationally defined epitopes. this proposed sequence-based method achieved outstanding performance - about twice that of existing methods, including the sequence-based predictor cbtope and three other structure-based predictors., the proposed method uses only antigen sequence information, and thus has much broader applications., b-cell immunity provides a natural barrier […]

PMCID: 5343848
PMID: 28157153
DOI: 10.3390/ijms18020312

[…] could be due to the difficulty in predicting conformational epitopes from amino acid sequences [], it is estimated that 90% of b-cell epitope binding is conformational []. to model this information cbtope [] (a conformational b-cell epitope predictor) was included in this study, however annotation features derived from cbtope were not present in the top ten annotation features used […]

PMCID: 5227168
PMID: 28127568
DOI: 10.1155/2016/6760830

[…] at 0.81 and 0.85 for the fragment-based prediction and 0.57 and 0.6 for full antigen. best outperforms several modern sequence-based b-cell epitope predictors including abcpred, bcpred, cobepro, and cbtope []., svmtrip employs support vector machine to combine the tripeptide similarity and propensity scores to predict linear epitopes. svmtrip achieves a sensitivity of 80.1% and a precision […]


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CBTOPE institution(s)
Bioinformatics Center, Institute of Microbial Technology, Chandigarh, India

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