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Table of ROC Areas Under Curve (AUCs)To evaluate the performance of the Vaxitope epitope prediction program in Vaxign, the Areas Under Curve (AUCs) of the ROC analysis were calculated using individual allele specific PSSMs. The positive and negative testing dataset was obtained from IEDB. Specific positive alelles were used to calculate the True Positive Rates, and the negative alleles were used to calculate the False Postive Rates. A leave-one-out approach was applied to test if a known epitope can be predicted on the condition that this epitope is excluded in initial generation of PSSMs. July 2011: Using new training data from IEDB, we have updated our Vaxitope program. Training Data: The training data was downloaded from IEDB on July 7, 2011, and is available HERE. This new training data was obtained by extracting the IEDB XML data file (accessed on July 7, 2011). Results: The AUC, specificities, and sensitivities of our prediction for each MHC allele are available HERE.
2009: The early calculation of AUCs occurred in 2009. Below are the results calculated based on IEDB training data provided. Training Data: The training data was downloaded from the IEDB dataste site (accessed in 2009), and is available HERE. Results: The AUC, specificities, and sensitivities of our prediction for each MHC allele are available HERE. This table below includes results for those MHC alleles that we have randomly chosen for AUC calculation, but it does not include all MHC alleles available in the Vaxign database. The results were obtained using the training data downloaded from IEDB in 2009.
More details about the the method and results are available in our original Vaxign paper.
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