Identifying DNA-binding proteins by combining support vector machine and PSSM distance transformation

BMC Systems Biology

Table 4 Results on Independent dataset PDB186 of different predictors^a

Methods	Acc(%)	MCC	Sn(%)	Sp(%)	AUC(%)
iDNA-Prot	67.20	0.344	67.70	66.70	83.30
DNA-Prot	61.80	0.240	69.90	53.80	79.60
DNAbinder	60.80	0.216	57.00	64.50	60.70
DNABIND	67.70	0.355	66.70	68.80	69.40
DNA-Threader	59.70	0.279	23.70	95.70	N/A
DBPPred	76.90	0.538	79.60	74.20	79.10
PSSM-DT	80.00	0.647	87.09	72.83	87.40

The six methods in the front of the table are six useful predicting methods for identification of DNA-binding proteins proposed in the past and were demonstrated to have good performance. The results of the six existing predicting methods and the SVM-PSSM-DT were achieved on the dataset PDB186 by their model trained on benchmark dataset.
^aThe results of iDNA-Prot [16], DNA-Prot [74], DNAbinder[21], DNABIND [34], DNA-Threader [78] and DDPPred [75] were obtained from [75].

ISSN: 1752-0509