Comparison of cancer subtype identification methods combined with feature selection methods in omics data analysis

Table 1 Scheme for the comparisons

		Methods	Software	Ref
Feature selection		MED	R	[21]
		VAR	R	[21]
		MAD	R	[21]
		DIP	R	[32]
		mRMR	R	[47]
		MCFS	R	[48]
Number of selected genes		ALL
		500
		2000
Subtype Identification	Resampling-based	CC	R		[11]
	Resampling-based	PINS	R		[18]
	Dimension reduction	NMF	R, Matlab		[12]
	Statistical model	ICB	R		[15]
	Similarity-based	SNF	R, Matlab		[16]
	Similarity-based	NEMO	R, Matlab		[17]
Evaluation	All datasets	Silhouette width
	All datasets	Log-rank test Computation time
	With gold standard only	ARI, NMI
Datasets	Without gold standard	AML
	Without gold standard	GBM
	With gold standard	BIC
	With gold standard	COAD

ISSN: 1756-0381