Artículo
Evaluation and Comparison of the Ability of Online Available Prediction Programs to Predict True Linear B-cell Epitopes
Costa, Juan Gabriel
; Faccendini, Pablo Luis
; Sferco, Silvano Juan; Lagier, Claudia Marina
; Marcipar, Ivan Sergio
Fecha de publicación:
06/2013
Editorial:
Bentham Science Publishers
Revista:
Protein And Peptide Letters
ISSN:
0929-8665
Idioma:
Inglés
Tipo de recurso:
Artículo publicado
Clasificación temática:
Resumen
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.
Palabras clave:
Diagnostic
,
Epitope
,
Prediction
,
Inmunochemistry
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Articulos(CCT - SANTA FE)
Articulos de CTRO.CIENTIFICO TECNOL.CONICET - SANTA FE
Articulos de CTRO.CIENTIFICO TECNOL.CONICET - SANTA FE
Articulos(IQUIR)
Articulos de INST.DE QUIMICA ROSARIO
Articulos de INST.DE QUIMICA ROSARIO
Citación
Costa, Juan Gabriel; Faccendini, Pablo Luis; Sferco, Silvano Juan; Lagier, Claudia Marina; Marcipar, Ivan Sergio; Evaluation and Comparison of the Ability of Online Available Prediction Programs to Predict True Linear B-cell Epitopes; Bentham Science Publishers; Protein And Peptide Letters; 20; 6; 6-2013; 724-730
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