JZ

Protein Secondary Structure Prediction

Hybrid convolutional–recurrent sequence model

04

Nine validation runs cluster near 64–66%; the first run is the outlier

Training and results

ResultThe ten logged accuracies average 64.05% with a 1.76pp sample standard deviation. Because one network instance continues learning across the runs, the sequence is a recorded training benchmark rather than an independent cross-validation estimate.

Recorded validation accuracy by run

Bars are scaled from 55% to 67% to show dispersion.

59.521
63.062
64.603
64.134
63.745
64.826
64.877
65.238
65.809
64.6810
Optimizer

Adam at 0.0004

The training script uses categorical cross-entropy and a padding-aware custom accuracy metric.

Regularization

50% recurrent dropout

The documented architecture applies recurrent dropout to the second and third recurrent layers.

Interpretation

Validation runs are not independent

The code creates the network once, then trains that same instance for one epoch in every recorded run.

StatisticValueInterpretation
Mean64.05%Matches the recorded 64.0% after rounding
Minimum59.52%Run 1
Maximum65.80%Run 9
Sample standard deviation1.76ppMostly driven by the low first run
Validation loss range0.5906–0.7077Lowest loss occurs in run 9