Table 2. Minimum performance of all programs.

DBP datasets
Sequence-based
Programs	Distance Cutoff	Dataset	wAUC	mAUC	sAUC	tAUC	SEN	SPC	PPV	ACC	F1	MCC
DBS-Pred	6	RBscore_D381	-	-	-	-	0.418	0.781	0.214	0.736	0.283	0.154
ProteDNA	6	RBscore_D381	-	-	-	-	0.029	0.999	0.799	0.878	0.055	0.137
BindN+_DNA	6	New_D31	0.743	0.780	0.091	0.776	0.421	0.908	0.358	0.856	0.387	0.307
RNABindR	6	New_D31	0.731	0.753	0.116	0.779	0.648	0.759	0.246	0.747	0.356	0.280
RNABindRPlus	6	New_D31	0.707	0.732	0.117	0.759	0.229	0.956	0.390	0.878	0.289	0.236
DBS-PSSM	5.5	New_D31	0.688	0.728	0.111	0.748	0.541	0.825	0.265	0.795	0.356	0.273
RBscore_SVM	6	New_D31	0.684	0.703	0.104	0.737	0.000	1.000	0.000	0.892	0.000	0.000
BindN_DNA	6	Luscombe_D129	0.654	0.678	0.093	0.680	0.341	0.856	0.282	0.783	0.308	0.182
RBRIdent	4.5	New_D31	0.652	0.683	0.104	0.655	0.105	0.953	0.167	0.883	0.129	0.071
PPRInt	4	New_D31	0.652	0.691	0.105	0.690	0.450	0.799	0.148	0.774	0.222	0.155
xypan	6	DNABINDPROT_D54	0.635	0.628	0.109	0.641	0.092	0.982	0.469	0.850	0.153	0.156
PRNA	6	New_D31	0.626	0.653	0.110	0.646	0.336	0.866	0.234	0.809	0.276	0.173
PRBR	6	ProteDNA_D253	0.612	0.587	0.139	0.602	0.317	0.824	0.362	0.702	0.338	0.148
Predict_RBP	4.5	New_D31	0.534	0.554	0.130	0.556	0.000	1.000	0.000	0.917	0.000	0.000
Structure-based
DISPLAR	6	New_D31	-	-	-	-	0.359	0.939	0.416	0.876	0.386	0.318
DNABINDPROT	5.5	BindN_D62	-	-	-	-	0.075	0.929	0.233	0.737	0.113	0.005
RBscore	6	New_D31	0.837	0.839	0.089	0.843	0.438	0.918	0.395	0.866	0.415	0.341
aaRNA	6	New_D31	0.804	0.813	0.060	0.834	0.552	0.891	0.381	0.854	0.451	0.378
RNAProSite	6	Luscombe_D129	0.785	0.803	0.081	0.790	0.760	0.696	0.290	0.705	0.420	0.329
DNABind	6	RBscore_D381	0.765	0.798	0.152	0.774	0.614	0.898	0.492	0.859	0.546	0.467
KYG	6	DNABINDPROT_D54	0.707	0.703	0.074	0.712	0.444	0.802	0.281	0.749	0.344	0.206
RBP datasets
Sequence-based
DBS-Pred	6	aaRNA_R141	-	-	-	-	0.359	0.790	0.190	0.738	0.248	0.116
ProteDNA	4.5	Sungwook_R267	-	-	-	-	0.001	0.999	0.140	0.888	0.002	0.003
RNABindRPlus	6	RNABindR_R111	0.738	0.725	0.113	0.720	0.321	0.914	0.316	0.848	0.319	0.233
RNABindR	6	New_R15	0.733	0.756	0.093	0.737	0.661	0.681	0.279	0.678	0.393	0.258
RBscore_SVM	6	New_R15	0.687	0.697	0.135	0.697	0.046	0.987	0.396	0.839	0.083	0.090
DBS-PSSM	5.5	New_R15	0.670	0.695	0.089	0.672	0.473	0.780	0.277	0.734	0.349	0.207
RBRIdent	4	New_R15	0.670	0.699	0.127	0.671	0.169	0.952	0.313	0.863	0.219	0.160
PRBR	6	New_R15	0.667	0.680	0.112	0.664	0.305	0.877	0.317	0.787	0.311	0.185
BindN+_RNA	6	New_R15	0.667	0.687	0.089	0.672	0.378	0.835	0.300	0.763	0.334	0.194
PPRInt	5.5	New_R15	0.637	0.658	0.131	0.648	0.356	0.814	0.255	0.745	0.297	0.150
PRNA	6	New_R15	0.612	0.629	0.141	0.624	0.295	0.865	0.290	0.775	0.293	0.159
xypan	6	New_R15	0.609	0.631	0.106	0.620	0.115	0.981	0.534	0.845	0.189	0.193
BindN_RNA	4	New_R15	0.608	0.642	0.121	0.626	0.324	0.842	0.209	0.783	0.254	0.139
Predict_RBP	6	New_R15	0.568	0.581	0.155	0.576	0.022	1.000	1.000	0.846	0.043	0.136
Structure-based
DISPLAR	6	Sungwook_R267	-	-	-	-	0.214	0.956	0.433	0.856	0.287	0.234
DNABINDPROT	5	Sungwook_R3149	-	-	-	-	0.038	0.948	0.239	0.677	0.066	-0.029
DR_bind1	4.5	meta2_R44	-	-	-	-	0.285	0.942	0.655	0.758	0.397	0.311
RBscore	6	KYG_R86	0.830	0.845	0.095	0.862	0.502	0.936	0.697	0.837	0.584	0.496
RNAProSite	6	meta2_R44	0.801	0.805	0.101	0.798	0.675	0.770	0.573	0.740	0.620	0.427
aaRNA	5.5	New_R15	0.780	0.785	0.070	0.777	0.539	0.854	0.396	0.806	0.457	0.348
KYG	6	Sungwook_R267	0.685	0.690	0.073	0.685	0.362	0.816	0.235	0.755	0.285	0.150
DNABind	4.5	Sungwook_R267	0.570	0.608	0.149	0.600	0.260	0.827	0.169	0.759	0.205	0.073

-: binary predictors and AUC not applicable.