International Immunology Advance Access originally published online on February 28, 2006
International Immunology 2006 18(4):613-626; doi:10.1093/intimm/dxl001
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A comprehensive SAGE database for the analysis of 
T cells
Veterinary Molecular Biology, Montana State University, Bozeman, MT 59717, USA
1 Present address: Molecular Biosciences Building, 960 Technology Boulevard, Bozeman, MT 59718, USA
Correspondence to: M. Jutila; E-mail: uvsmj{at}montana.edu
T cells have been conserved since the adaptive immune system arose, yet their importance is still unclear. In an attempt to compensate for the lack of a broad knowledge base of T cells across species, global analyses of T cell transcriptomes have been performed using serial analysis of gene expression (SAGE). Twelve new SAGE libraries were generated from the following bovine lymphocyte populations: magnetic bead-sorted blood T cells, spleen T cells and enriched spleen 
ß T cells from a single calf, both rested and Con A/IL2 stimulated, and flow cytometry-sorted blood and ß T cells each either rested, Con A/IL2, or phorbol 12 myristate 13-acetate/ionomycin stimulated. These new libraries complement two earlier SAGE libraries of circulating T cell subsets. These databases were analyzed using new web-based bioinformatic tools, which allow the user to rapidly compare gene expression patterns within these and other SAGE and standard expressed sequence tag libraries generated from different cell types and different species. These analyses revealed striking differences between blood and spleen T cells and how these cells respond to mitogenic stimulation. These analyses also confirm previous studies that suggested that global gene expression in and ß T cells is quite similar; however, a 5-fold increase in T cell-specific transcripts could be induced by Con A/IL2 stimulation. These new public databases provide additional resources for the annotation/analysis of global gene expression in T cells, which will facilitate studies of the biology of this enigmatic lymphoid cell.
Keywords: serial analysis of gene expression (SAGE), ß T cells
Transmitting editor: S. M. Hedrick
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