Dynamic incorporation of prior knowledge from multiple domains in biomarker discovery

BMC Bioinformatics

Table 2 Methods Comparison in Two-Class Classification Tasks

Method	Lasso	RRF	Know-GRRF
			prior 1		prior 2		prior both
			Freq>50%	Stepwise	Freq>50%	Stepwise	Freq>50%	Stepwise
Scenario 1
JI	0.26	0.18	0.40	0.40	0.50	0.33	0.80^a	0.80^a
TPR	0.90	0.30	0.40	0.40	0.50	0.40	0.80	0.80
FPR	0.27	0.08	0	0	0	0.03	0	0
FN	10	1, 2, 3, 4, 7, 9, 10	4, 6, 7, 8, 9, 10	4, 6, 7, 8, 9, 10	1, 2, 3, 4, 5	1, 2, 3, 4, 5, 10	2, 4	4, 10
Scenario 2
JI	0.38	0.19	0.47	0.55	0.50	0.30	0.60	0.80^a
TPR	0.80	0.40	0.70	0.60	0.50	0.30	0.60	0.80
FPR	0.12	0.12	0.06	0.01	0	0	0	0
FN	3, 9	1, 2, 4, 7, 8, 9	7, 8, 9	4, 7, 8, 9	1, 2, 3, 4, 5	1, 2, 3, 4, 7, 8, 9	1, 3, 5, 9	1, 9
Scenario 3
JI	0.31	0.27	0.40	0.27	0.50	0.30	0.50	0.90^a
TPR	1.00	0.40	0.40	0.30	0.50	0.30	0.50	0.90
FPR	0.24	0.06	0	0.01	0	0	0	0
FN		1, 3, 5, 6, 7, 8	1, 6, 7, 8, 9, 10	1, 3, 6, 7, 8, 9, 10	1, 2, 3, 4, 5	1, 2, 3, 4, 7, 8, 9	1, 3, 4, 5, 7	3

ISSN: 1471-2105