The performance of the neural networks was evaluated on a commonly used set of
sequences known as the CB513 set. An overall Pearson's correlation coefficient of 0.72 was
obtained, which is comparable to the performance of the currently best public available method,
Real-SPINE. Both methods associate a reliability score with the individual predictions. However,
our implementation of reliability scores in the form of a Z-score is shown to be the more
informative measure for discriminating good predictions from bad ones in the entire range from
completely buried to fully exposed amino acids. This is evident when comparing the Pearson's
correlation coefficient for the upper 20% of predictions sorted according to reliability. For this
subset, values of 0.79 and 0.74 are obtained using our and the compared method, respectively. This
tendency is true for any selected subset.