Table 1.

The public datasets used in this study.

Datasets	Platforms	The number of normal samples	The number of cancer samples
Datasets with paired cancer-normal samples
GSE29272	Affymetrix GPL96	134	134
GSE2685	Affymetrix GPL80	6	6
GSE63089	Affymetrix GPL5175	45	45
GSE13195	Affymetrix GPL5175	25	25
GSE56807	Affymetrix GPL5175	5	5
GSE13911	Affymetrix GPL570	31	31
GSE19826	Affymetrix GPL570	12	12
GSE79973	Affymetrix GPL570	10	10
GSE65801	Agilent GPL14550	32	32
GSE51575	Agilent GPL13607	26	26
GSE29998	Illumina GPL6947	49	49
GSE13861	Illumina GPL6884	19	19
GSE63288	SOLiD GPL13393	22	22
TCGA	HiSeq_RNASeqV2	32	32
Datasets without paired cancer-normal samples
GSE54129	Affymetrix GPL570	21	111
GSE38749	Affymetrix GPL570	-	15
GSE57303	Affymetrix GPL570	-	70
GSE34942	Affymetrix GPL570	-	56
GSE22377	Affymetrix GPL570	-	43
GSE35809	Affymetrix GPL570	-	70
GSE51105	Affymetrix GPL570	-	94
GSE15459	Affymetrix GPL570	-	200
GSE34942	Affymetrix GPL570	-	56
TCGA	HiSeq_RNASeqV2	-	375

Notes: “-” represented that there is no sample in the corresponding category.