Table 1

SAGE libraries used to identify potential tumor markers

Libraries used to assess the tissue specificity of differentially expressed genes are listed. A subset of these libraries, indicated in bold type, was also used for hierarchical clustering and supervised learning. Two additional gastric libraries were used for hierarchical clustering and supervised learning (gastric cancer-G234 and gastric cancer xenograft X101) but are not listed because they were not used to assess tissue specificity of differentially expressed genes. Additional library details are available from the NCBI website. Abbreviations: T, library derived from a primary tumor; M, library derived from a metastatic tumor; CL, library derived from a tumor cell line; DCIS, ductal carcinoma in situ.

BreastOvaryProstatePancreasColon
95-259 (T) A2780 (CL)A− (CL)CAPAN 1 (CL)Caco 2 (CL)
95-260 (M) ES2-1 (CL)A+ (CL)CAPAN 2 (CL)HCT116 (CL)
95-347 (T) ML 10-10 (CL) Chen tumor Pr (T) HS766T (CL)RKO (CL)
95-348 (M) OV1063-3 (CL)LN-1 (T) Panc 91-16113 (T) SW837 (CL)
DCIS (T)OVCA432-2 (CL)Chen LNCaP (CL) Panc 96-6252 (T) Tu102 (T)
DCIS 2 (T)OVP-5 (CL)CPDR LNCaP C (CL)Panc 1 (CL) Tu98 (T)
Duke 95-349 (T) OVT-6 (T) LNCaP no DHT (CL)
LacZ (CL) OVT-7 (T) CPDR LNCaP T (CL)
MDA453 (CL) OVT-8 (T) PR317 prostate tumor (T)
PTEN (CL)PrCA-1 (T)
MCF7 control 0 (CL)TSU (CL)
MCF7 control 3 (CL)
MCF7 estrogen 10 (CL)
MCF7 estrogen 3 (CL)
SKBR3 (CL)