. Author manuscript; available in PMC: 2015 Mar 4.

Published in final edited form as: IEEE/ACM Trans Comput Biol Bioinform. 2014 Aug 7;12(1):103–112. doi: 10.1109/TCBB.2014.2343960

TABLE 4.

Performance of Second Tier Architecture Variation

Rank	Layers	Nodes^a	Q₃ (%)	Sov (%)
1	4	600	80.24	73.07
2	5	400	79.96	72.67
3	3	500	80.00	72.37
4	4	300	79.84	72.48
5	6	300	79.82	72.50
6	3	400	79.89	72.20
7	6	400	79.87	72.15
8	6	200	79.70	72.24
9	5	500	79.42	71.03
10	4	400	79.35	70.83
11	4	500	79.39	70.31
12	3	600	79.07	70.06

Scores show the average accuracy of deep networks of the second tier, trained using indicted architecture parameters and evaluated using the test data set of 195 proteins, listed from highest to lowest ranked score.

Nodes refers to the size of the majority of hidden layers, as node amount is not always consistent between layers.