Evaluation and comparison of the ability of online available prediction programs to predict true linear B-cell epitopes.
Protein Pept Lett
; 20(6): 724-30, 2013 Jun.
Article
em En
| MEDLINE
| ID: mdl-22973845
ABSTRACT
This work deals with the use of predictors to identify useful B-cell linear epitopes to develop immunoassays. Experimental techniques to meet this goal are quite expensive and time consuming. Therefore, we tested 5 free, online prediction methods (AAPPred, ABCpred, BcePred, BepiPred and Antigenic) widely used for predicting linear epitopes, using the primary structure of the protein as the only input. We chose a set of 65 experimentally well documented epitopes obtained by the most reliable experimental techniques as our true positive set. To compare the quality of the predictor methods we used their positive predictive value (PPV), i.e. the proportion of the predicted epitopes that are true, experimentally confirmed epitopes, in relation to all the epitopes predicted. We conclude that AAPPred and ABCpred yield the best results as compared with the other programs and with a random prediction procedure. Our results also indicate that considering the consensual epitopes predicted by several programs does not improve the PPV.
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Base de dados:
MEDLINE
Assunto principal:
Epitopos de Linfócito B
/
Biologia Computacional
/
Análise de Sequência de Proteína
Tipo de estudo:
Evaluation_studies
/
Prognostic_studies
/
Risk_factors_studies
Idioma:
En
Ano de publicação:
2013
Tipo de documento:
Article