We also briefly compare the performance of a classical gradient descent (GD) adaptation algorithm with the best performing predictor in our experiments.
ROC curves of the best performing predictor and two combinations are shown in Figure 6.
Finally the MemBrain mean normalized rmsd is 0.35, also about 20% better than the second-best performing predictor Phobius.
For each moderated hierarchical regression performed, predictor variables were entered within three successive steps.
The best performing predictor of Table 5 is a SVM based method that adds to the GO-scores also the variation type (last row of Table 5).
The relative expression patterns and prognostic value of individual genes constituting the Buck-4 and IR-7 signatures in these FFPE samples suggested that a better performing predictor may be derived by combining specific genes from both signatures.
The performance of this algorithm can be readily compared to the best performing predictors as outlined in SUBA, the Arabidopsis subcellular database (Table S7) [38].
Figures 3 and 4 also show the best performing predictors from the original benchmark study, FGENEH and GeneID+, that use intrinsic and extrinsic genomic information, respectively.
For the reasons listed above the best performing predictors described in literature are based on HMMs and among them the best performing single-method in the task of the topology prediction is HMM-B2TMR [ 18] (see Table 1 in [ 20]).
