Sequence and structure based models of HIV-1 protease and reverse transcriptase drug resistance

BMC Genomics

Table 3 Predictive accuracy of REPTree, SVR, RF, and SVM using TSM, All, and IAS sets to construct mutant feature vectors

	REPTree			SVR			RF			SVM
Drug	TSM	All	IAS	TSM	All	IAS	TSM	All	IAS	TSM	All	IAS	DrugMean
Protease Inhibitors
APV	0.79	0.80	0.78	0.77	0.78	0.76	0.78	0.79	0.78	0.77	0.77	0.75	0.78
ATV	0.69	0.69	0.71	0.69	0.67	0.67	0.74	0.74	0.74	0.67	0.65	0.65	0.69
IDV	0.77	0.78	0.76	0.78	0.78	0.76	0.77	0.78	0.78	0.76	0.76	0.76	0.77
LPV	0.78	0.78	0.79	0.72	0.72	0.72	0.80	0.82	0.80	0.72	0.72	0.72	0.76
NFV	0.80	0.81	0.78	0.78	0.78	0.78	0.80	0.82	0.79	0.78	0.78	0.78	0.79
RTV	0.86	0.87	0.83	0.80	0.82	0.76	0.86	0.86	0.86	0.80	0.79	0.81	0.83
SQV	0.80	0.80	0.79	0.82	0.82	0.80	0.81	0.82	0.82	0.81	0.82	0.81	0.81
TPV	0.83	0.81	0.79	0.79	0.87	0.85	0.79	0.79	0.79	0.81	0.81	0.91	0.82
AVG	0.79	0.79	0.78	0.77	0.78	0.76	0.79	0.80	0.80	0.77	0.76	0.77	0.78
Nucleoside/Nucleotide RT Inhibitors
3TC	0.89	0.89	0.89	0.68	0.86	0.69	0.90	0.89	0.89	0.86	0.87	0.86	0.85
ABC	0.71	0.68	0.71	0.70	0.71	0.68	0.71	0.73	0.72	0.68	0.65	0.67	0.70
AZT	0.69	0.73	0.73	0.78	0.76	0.73	0.74	0.75	0.74	0.72	0.78	0.72	0.74
d4T	0.72	0.75	0.73	0.77	0.77	0.76	0.79	0.76	0.74	0.79	0.76	0.78	0.76
ddC	0.77	0.79	0.78	0.79	0.76	0.78	0.80	0.77	0.83	0.78	0.78	0.79	0.79
ddI	0.78	0.76	0.75	0.74	0.77	0.73	0.75	0.76	0.74	0.77	0.75	0.76	0.76
FTC	0.92	0.94	0.92	0.81	0.81	0.94	0.94	0.94	1.00	0.83	0.83	0.85	0.89
TDF	0.73	0.72	0.69	0.69	0.69	0.65	0.73	0.76	0.68	0.67	0.67	0.67	0.70
AVG	0.78	0.78	0.78	0.75	0.77	0.75	0.80	0.80	0.79	0.76	0.76	0.76	0.77
Nonnucleoside RT Inhibitors
DLV	0.74	0.71	0.75	0.76	0.70	0.76	0.76	0.75	0.74	0.78	0.74	0.78	0.75
EFV	0.79	0.79	0.79	0.79	0.75	0.74	0.85	0.81	0.84	0.78	0.74	0.76	0.79
NVP	0.83	0.83	0.83	0.82	0.69	0.79	0.85	0.84	0.86	0.83	0.76	0.85	0.82
AVG	0.79	0.78	0.79	0.79	0.71	0.76	0.82	0.80	0.81	0.80	0.75	0.80	0.78

ISSN: 1471-2164