SeqRate: sequence-based protein folding type classification and rates prediction

BMC Bioinformatics

Table 4 Comparison among different folding rate prediction methods based on “IVANKOVDATA”

Methods	Method Type	Fold kinetic Classification Accuracy	Correlation	MAD
Effective length method	sequence	NA	0.70	0.96
LRCO method	sequence	NA	0.61	0.81
FOLD-RATE	sequence	NA	0.91	1.1
K-Fold	structure	81%	0.74	0.75
Multi-predictor SVM (two-state)	sequence	80%	0.81	0.79
Multi-predictor SVM (multi-state)	sequence	80%	0.80	0.68

Method 1: Effective length method [14]
Method 2: LRCO method [19]
Method 3: FOLD-RATE [16]
Method 4: K-Fold [7]
Method 5: Our multi-predictor SVM (two-state)
Method 6: Our multi-predictor SVM (multi-state)
Method-Type means if the method is using experimental structural data (structure) or using only sequence data (sequence). Correlation here means the correlation value between predicted rates and experimental rates. MAD is mean absolute difference between predicted rates and experimental rates.

ISSN: 1471-2105