Table 3 Description of microarray data sets tested

Leukemia

http://www.broadinstitute.org/cgi-bin/cancer/datasets.cgi

ALL B-cell (38), ALL T-cell (9), AML (25)

Affymetrix HuFL

Lymphoma

GEO (GSE60)

B-CLL (12), FL (9), DLBCL (68)

cDNA

Colon tumor

GEO (GSE5206)

Colon tumor (100), Normal colon (5)

Affymetrix U133 Plus 2.0

Thyroid tumor I

GEO (GSE3467)

Thyroid tumor (9), Normal thyroid (9)

Affymetrix U133 Plus 2.0

Thyroid tumor II

GEO (GSE3678)

Thyroid tumor (7), Normal thyroid (7)

Affymetrix U133 Plus 2.0

St. Jude

http://www.stjuderesearch.org/data/ALL1

BCR-ABL (15), E2A-PBX1 (27), Hyperdip-50 (64),

MLL (20), T-ALL (43), TEL-AML1 (79)

Affymetrix U95A

Normal tissue I

GEO (GDS422)

Bone (2), Liver (2), Heart (2), Spleen (2),

Lung (2), Kidney (2), Skeletal (2), Thymus (2), Brain (2), Spinal (2), Prostate (2), Pancreas (2)

Affymetrix U95A

Normal tissue II

http://www.broadinstitute.org/cgi-bin/cancer/datasets.cgi

Bladder (7), Breast (5), Cerebellum (3), Colon (11), Germinal Center (6), Kidney (12), Lung (7), Ovary (4), Pancreas (10), PBM (5), Prostate (9), Uterus (6),

Whole Brain (5)

Affymetrix HuFL