BMC Genomics 2005, 6:130 http://www.biomedcentral.com/1471-2164/6/130 Table 2: Top 20 expressed genes in normal cervical tissue. Tag sequence Tags TACCTGCAGA TAGGTTGTCT TTTCCTGCTC GAGGGAGTTT GTGACCACGG GTGGCCACGG GGGCTGGGGT GCATAATAGG TCAGATCTTT GTTGTGGTTA GGATTTGGCC TTGGGGTTTC TTGGTCCTCT TGCACGTTTT ACAAAGCATT AGGGCTTCCA CCACTGCACT GGCAAGCCCC CTGGGTTAAT TGCACTTCAA 515 356 276 201 188 184 173 168 161 155 151 143 138 130 128 122 114 107 105 103 TPMa 16930 11703 9073 6607 6180 6049 5687 5523 5292 5095 4964 4701 4536 4273 4208 4010 3747 3517 3451 3386 UniGene ID Hs.416073 Hs.374596 Hs.139322 Hs.523463 Hs.436980 Hs.112405 Hs.425125; Hs.90436 Hs.381123 Hs.446628 Hs.99785 Hs.437594 Hs.448738 Hs.381172 Hs.265174 Hs.369982 Hs.401929 Hs.107003 Hs.148340 Hs.334534 RPL29; SPAG7 Gene S100A8 TPT1 SPRR3 RPL27A GRIN2C S100A9 RPL21 RPS4X RPLP2 FTH1 RPL41 RPL32 IGFBP5 RPL10 RPL10A GNS Cluster name S100 calgranulin A Tumor protein, translationally- controlled 1 Small proline-rich protein 3 Ribosomal protein L27a Glutamate receptor, N-methyl D-aspartate 2C S100 calcium binding protein A9 (calgranulin B) Ribosomal protein L29; Sperm associated antigen 7 Ribosomal protein L21 Ribosomal protein S4, X-linked FLJ21245 Ribosomal protein, large P2 Ferritin, heavy polypeptide 1 Rribosomal protein L41 Ribosomal protein L32 Insulin-like growth factor binding protein 5 Ribosomal protein L10 ribosomal protein L10a Glucosamine (N-acetyl)-6- sulfatase CCNB1IP1 Cyclin B1 interacting protein 1 Hs.62886 SPARCL1 SPARC-like 1 (mast9, hevin) Biological Functionb Regulation of cell cycle progression and differentiation. Unknown Cross-linked envelope protein of keratinocytes Component of the ribosomal 60S subunit Ionotropic glutamate receptor Regulation of cell cycle progression and differentiation. Component of the ribosomal 60S subunit. Component of the ribosomal 60S subunit. Component of the ribosomal 40S subunit. Unknown Component of the ribosomal 60S subunit. Important for iron homeostasis, stores iron in a soluble, nontoxic, readily available form. Component of the ribosomal 60S subunit. Component of the ribosomal 60S subunit. IGF-binding proteins prolong the half-life of the IGFs and have been shown to either inhibit or stimulate the growth promoting effects of the IGF on cell culture. Component of the ribosomal 60S subunit. Functions in progression of the cell cycle through G(2)/M. Component of the ribosomal 60S subunit. Lysosomal enzyme found in all cells. It is involved in the catabolism of heparin, heparan sulphate, and keratan sulphate. Calcium ion binding aTPM: Tags per million; [(Tag frequency)(1000,000)/Total No of sequenced tags]. bBiological function obtained from SOURCE, at http://smd.stanford.edu/cgi-bin/source/sourceSearch Conclusion To our knowledge, this is the first effort to achieve a global profile of gene expression in normal cervical tissue. This was accomplished by means of a methodology that pro- duced an accurate catalog of expressed genes in this tissue. Analysis of gene expression revealed genes involved in keratinocyte differentiation. These genes have not been detected in cervical epithelium by traditional methodolo- gies such as RT-PCR or in situ hybridization. Although our SAGE library was derived from a single donor, the major- ity of samples analyzed expressed the genes selected, indi- cating reproducibility in human samples. SAGE methodology is a complex and expensive analysis mainly due to the great sequencing efforts required to achieve SAGE libraries. Nevertheless, the overwhelming informa- tion derived from these justifies the effort and provides Page 5 of 9 (page number not for citation purposes)