Prediction of protein-RNA residue-base contacts using two-dimensional conditional random field with the lasso

BMC Systems Biology

Table 3 Results on average AUC scores for test pairs using the contact definition of 3 Å

# groups	M I	M I _p	label	M I+label	M I_p+label
without lasso (C = 0)
2	0.550	0.557	0.503	0.511	0.502
4	0.534	0.517	0.547	0.505	0.502
8	0.541	0.555	0.535	0.512	0.521
10	0.528	0.557	0.519	0.529	0.536
15	0.538	0.579	0.533	0.498	0.523
20	0.539	0.574	0.546	0.561	0.557
lasso (C = 1)
2	0.556	0.570	0.505	0.520	0.492
4	0.525	0.542	0.611	0.615	0.596
8	0.509	0.562	0.610	0.603	0.600
10	0.525	0.553	0.634	0.633	0.629
15	0.510	0.569	0.635	0.634	0.621
20	0.510	0.579	0.625	0.631	0.622
lasso (C = 2)
2	0.533	0.521	0.510	0.504	0.508
4	0.533	0.543	0.620	0.623	0.620
8	0.550	0.529	0.632	0.624	0.618
10	0.525	0.527	0.625	0.628	0.633
15	0.516	0.524	0.640	0.640	0.645
20	0.514	0.546	0.626	0.641	0.642

Results on average AUC scores for test pairs using the contact definition of 3 Å, M I, M I_p, labels representing kinds of amino acids and bases, and the grouping of amino acids with lasso parameter C = 0, 1, and 2.

ISSN: 1752-0509