MOESM1 of A genotypic method for determining HIV-2 coreceptor usage enables epidemiological studies and clinical decision support

Abstract

Additional file 1: Figure S1. Distribution of X4-probabilities predicted by geno2pheno[coreceptor-hiv2]. Blue bars indicate sequences labeled as R5, while red bars indicate sequences labeled as X4-capable. Figure S2. Estimated TPRs versus FPRs for predictions from geno2pheno[coreceptor-hiv2]. Each dot indicates a prediction of HIV-2 coreceptor usage and the color of the dot indicates the corresponding phenotypic coreceptor usage (blue: R5, red: X4-capable). Table S1. Predictive performance of the rules-based approach from Visseaux et al. on the test set. Table S2. Predictive performance of individual rules identified by Visseaux et al. ordered by decreasing balanced accuracy as determined on the test set. Table S3. Overview of observations with identical V3 loops, but discordant annotation of phenotypic coreceptor usage. Table S4. Distribution of class labels and HIV-2 groups in the data set. Table S5. Structure of the 2x2 contingency table required for McNemar’s test