Protein-specific prediction of mRNA binding using RNA sequences, binding motifs and predicted secondary structures

Table 2 Performance of Oli , OliMo , OliMoSS , RNAcontext and RPISeq on the AURA_dataset

Name	#(RBP+)	Oli	OliMo	OliMoSS	RNAcontext	RPISeq-SVM	RPISeq-RF
AGO1	1824	0.86	0.85	0.84	0.83	0.74	0.62
AGO2	207	0.84	0.83	0.70	0.80	0.7	0.61
AGO4	270	0.87	0.84	0.78	0.82	0.76	0.62
AUF1	1319	0.69	0.69	0.67	0.62	0.57	0.6
CPEB1	182	0.69	0.67	0.59	0.55	0.62	0.53
CPEB4	72	0.52	0.54	0.60	0.50	0.54	0.52
CUGBP1	195	0.78	0.78	0.65	0.72	0.72	0.6
ELAVL1	1262	0.73	0.73	0.69	0.68	0.6	0.61
PUM1	420	0.68	0.68	0.66	0.68	0.67	0.64
PABP	258	0.57	0.58	0.52	0.52	0.52	0.51
QKI	710	0.87	0.86	0.86	0.83	0.78	0.76
TNRC6A	246	0.87	0.83	0.79	0.82	0.67	0.67
TNRC6B	742	0.86	0.86	0.82	0.83	0.70	0.68
TNRC6C	151	0.80	0.80	0.68	0.77	0.70	0.61
U2AF65	228	0.73	0.73	0.67	0.71	0.64	0.64
Mean ±sd		0.75 ±0.11	0.75 ±0.10	0.70 ±0.09	0.71 ±0.11	0.66 ±0.07	0.61 ±0.06

The table lists RBPs, the number of sequences and the AUCs for each method on the AURA_dataset. The AUCs are calculated in 10-fold cross validations and at a sequence identity of 80%. The negatives are provided in all cases by 3K- (see Evaluation Evaluation 1). Data are reported with means ± standard deviation (sd).

ISSN: 1471-2105