TABLE 2.

Adjusted Rand index for 13 feature selection methods, a negative (RAND) and positive control (PVAL) for data sets KIRP, STAD, LGG, and BRCA.

	DIP	BI	BC	VRS	mVRS	wVRS	ENT	IQR	SD	M	Q3	CoEx1	CoEx2	PVAL	RAND
KIRP100	0.01	0.25	0.23	0.18	0.23	0.10	0.17	0.14	0.14	0.17	0.19	0.05	0.00	0.39	0.11
STAD100	0.03	0.05	0.03	0.05	0.04	0.07	−0.01	−0.02	−0.02	0.01	−0.01	0.01	0.01	0.06	0.07
LGG100	0.00	0.01	0.01	0.01	0.01	0.01	0.08	0.10	0.09	0.00	0.01	0.12	0.22	0.96	0.29
BRCA100	0.67	0.77	0.61	0.75	0.76	0.75	0.61	0.61	0.60	0.58	0.37	0.11	0.07	0.78	0.49
KIRP1000	0.24	0.29	0.20	0.23	0.24	0.15	0.25	0.28	0.21	0.25	0.28	0.02	0.00	0.20	0.19
STAD1000	0.49	0.43	−0.03	0.09	0.33	0.16	0.28	0.40	0.34	0.02	−0.03	0.10	0.00	0.58	0.17
LGG1000	0.72	0.16	0.08	0.07	0.18	0.06	0.14	0.20	0.18	0.55	0.39	0.34	0.11	0.95	0.37
BRCA1000	0.62	0.60	0.61	0.73	0.73	0.61	0.60	0.60	0.58	0.60	0.64	0.17	0.05	0.73	0.60
KIRP3000	0.21	0.29	0.12	0.27	0.16	0.18	0.28	0.28	0.28	0.11	0.18	0.03	0.00	0.28	0.21
STAD3000	−0.01	0.66	0.19	0.35	0.04	0.02	0.38	0.42	−0.01	−0.01	−0.06	0.00	0.00	0.61	0.14
LGG3000	0.71	0.19	0.08	0.15	0.27	0.14	0.17	0.17	0.17	0.32	0.63	0.32	0.33	0.74	0.38
BRCA3000	0.60	0.60	0.60	0.60	0.60	0.60	0.60	0.60	0.60	0.65	0.74	0.04	0.01	0.60	0.60

The table shows results for selection of top ranked genes at three levels: 100, 1000, and 3000 genes. Adjusted Rand index when including all genes was obtained as 0.28, −0.01, 0.39, and 0.73 for KIRP, STAD, LGG, and BRCA, respectively. The gene selection methods are dip-test statistic (DIP), bimodality index (BI), bimodality coefficient (BC), variance reduction score (VRS), modified variance reduction score (mVRS), weighted variance reduction score (wVRS), entropy estimator (ENT), interquartile range (IQR), standard deviation (SD), mean value (M), third quartile (Q3), co-expression (CoEx1), and modified co-expression (CoEx2).