Table I. Four types of data sets analyzed in this work, along with source of data set, number of samples, quantitation method, and search engine used.

Data set	Tissue type	Reanalysis?	Source	Num. of samples	Pooled?	Quantitation	Search engine
Data set 1	Colon cancer	yes	Previously published data (17)	3 AC	yes	iTRAQ	Mascot
			PXD005274	3 TVA
				3 TA
				3 NC
Data set 2	Colon cancer		Experimental data	10 AC
				10 NC
	Bladder cancer	no	PXD004249	10 BC	no	label-free	Mascot
				10 NC
Data set 3	Colorectal cancer	yes	PRIDE (PXD002041–2050)	16 AC	no	spectral count	MS-GF+
				16 NC
Data set 4	Ulcerative colitis	yes	PRIDE (PXD001608)	10 UC	no	spectral count	MS-GF+
				10 NC