Curation-free biomodules mechanisms in prostate cancer predict recurrent disease

BMC Medical Genomics

Table 3 Evaluation of the overlap among different approaches to prioritize classifier's mechanisms

Approaches to Prioritize Classifier's Mechanisms		Overlapping Mechanism (#)	% of each compared set	Overlapping p-value (FET)
FAIME-Derived Approaches	*Overlap-Gene Ontology*
	Yu ∩ Wallace	462	15%; 38%	6.9 x10^-6
	Yu ∩ Taylor	824	26%;34%	3.8 x10^-3
	Wallace ∩ Taylor	360	29%;15%	2.2 x10^-5
	Yu ∩ Wallace ∩ Taylor	137	4%;11%;6%
	*Overlap Cancer Module*
	Yu ∩ Wallace	41	15%;49%	1.9x10^-4
	Yu ∩ Taylor	77	27%;46%	5.7 x10^-6
	Wallace ∩ Taylor	25	30%;15%	4.8 x10^-4
	Yu ∩ Wallace ∩ Taylor	14	5%;17%;8%
Controls: Standard Bioinformatics Approaches	*Overlap of Differentially Expressed Genes*
	Yu ∩ Wallace	33	11%;6%	6.1 x10^-9
	Yu ∩ Taylor	65	22%;24%	<2 x10^-16
	Wallace ∩ Taylor	20	3%;8%	1.5 x10^-3
	Yu ∩ Wallace ∩ Taylor	7	2%;1%;3%
	*Overlap GO derived from Differentially Expressed Genes*
	Yu ∩ Wallace	1	5%;10%	4.2 x10^-2
	Yu ∩ Taylor	0	NA	NS
	Wallace ∩ Taylor	0	NA	NS
	Yu ∩ Wallace ∩ Taylor	0	NA	NS

Legend: NA = not applicable; NS = not significant; #= count of significant mechanisms overlap

ISSN: 1755-8794