Structured feature selection using coordinate descent optimization

Ghalwash, Mohamed F.; Cao, Xi Hang; Stojkovic, Ivan; Obradovic, Zoran

doi:10.1186/s12859-016-0954-4

BMC Bioinformatics

Table 2 Evaluation of gene selection methods on 5 benchmark datasets using the top m genes

From: Structured feature selection using coordinate descent optimization

	Method	m=20	m=50	m=100	m=200	m=1000
Tumor14	BCGD	0.786 ±0.036	0.797 ±0.049	0.821 ±0.041	0.825 ±0.036	0.846 ±0.042
	PC	0.766 ±0.047	0.786 ±0.041	0.793 ±0.041	0.805 ±0.045	0.830 ±0.033
	Relief	0.748 ±0.069	0.788 ±0.050	0.803 ±0.033	0.822 ±0.036	0.844 ±0.038
	mRMR	0.785 ±0.041	0.803 ±0.036	0.813 ±0.038	0.817 ±0.039	0.824 ±0.033
	STBIP	0.672 ±0.054	0.733 ±0.035	0.761 ±0.044	0.795 ±0.038	0.837 ±0.047
Lung	BCGD	0.762 ±0.180	0.806 ±0.168	0.789 ±0.183	0.789 ±0.163	0.785 ±0.169
	PC	0.732 ±0.200	0.777 ±0.189	0.756 ±0.185	0.777 ±0.188	0.789 ±0.153
	Relief	0.652 ±0.243	0.689 ±0.245	0.732 ±0.206	0.752 ±0.224	0.797 ±0.147
	mRMR	0.721 ±0.207	0.750 ±0.195	0.755 ±0.195	0.788 ±0.184	0.783 ±0.156
	STBIP	0.637 ±0.212	0.721 ±0.198	0.739 ±0.192	0.767 ±0.170	0.771 ±0.165
Myeloma	BCGD	0.662 ±0.077	0.706 ±0.061	0.712 ±0.062	0.709 ±0.058	0.717 ±0.061
	PC	0.675 ±0.071	0.694 ±0.068	0.705 ±0.058	0.709 ±0.055	0.713 ±0.056
	Relief	0.583 ±0.085	0.624 ±0.085	0.650 ±0.075	0.679 ±0.064	0.709 ±0.058
	mRMR	0.647 ±0.077	0.691 ±0.058	0.702 ±0.061	0.715 ±0.061	0.721 ±0.057
	STBIP	0.565 ±0.093	0.619 ±0.079	0.648 ±0.082	0.672 ±0.079	0.701 ±0.062
DLBCL	BCGD	0.970 ±0.031	0.971 ±0.034	0.975 ±0.024	0.981 ±0.023	0.987 ±0.017
	PC	0.947 ±0.041	0.957 ±0.042	0.963 ±0.047	0.964 ±0.043	0.980 ±0.027
	Relief	0.947 ±0.062	0.974 ±0.027	0.983 ±0.020	0.988 ±0.016	0.990 ±0.013
	mRMR	0.962 ±0.055	0.981 ±0.025	0.987 ±0.019	0.985 ±0.021	0.980 ±0.025
	STBIP	0.808 ±0.101	0.905 ±0.060	0.925 ±0.063	0.943 ±0.066	0.978 ±0.029
Colon	BCGD	0.874 ±0.110	0.878 ±0.101	0.879 ±0.095	0.886 ±0.096	0.858 ±0.119
	PC	0.886 ±0.164	0.879 ±0.150	0.863 ±0.150	0.868 ±0.125	0.856 ±0.115
	Relief	0.896 ±0.113	0.888 ±0.098	0.877 ±0.104	0.859 ±0.128	0.859 ±0.113
	mRMR	0.874 ±0.115	0.889 ±0.104	0.872 ±0.120	0.870 ±0.093	0.850 ±0.118
	STBIP	0.781 ±0.181	0.821 ±0.143	0.847 ±0.128	0.847 ±0.139	0.862 ±0.115
Average	BCGD	0.811 ±0.148	0.832 ±0.132	0.835 ±0.133	0.838 ±0.127	0.840 ±0.137
	PC	0.801 ±0.158	0.819 ±0.146	0.816 ±0.144	0.825 ±0.137	0.834 ±0.131
	Relief	0.765 ±0.191	0.792 ±0.179	0.809 ±0.159	0.820 ±0.158	0.841 ±0.132
	mRMR	0.798 ±0.160	0.823 ±0.145	0.826 ±0.145	0.835 ±0.133	0.832 ±0.131
	STBIP	0.693 ±0.167	0.760 ±0.153	0.784 ±0.148	0.805 ±0.141	0.830 ±0.138

The average and standard deviation of AUC is reported for each experiment over 40 runs. Last raw shows the average AUC over all datasets. Bold represents the best AUC

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