Identification and Confirmation of a Module of Coexpressed Genes

Creators: Thompson, H. Garrett R.; Harris, Joseph W.; Wold, Barbara J.; Quake, Stephen R.; Brody, James P.

Abstract

We synthesize a large gene expression data set using dbEST and UniGene. We use guilt-by-association (GBA) to analyze this data set and identify coexpressed genes. One module, or group of genes, was found to be coexpressed mainly in tissue extracted from breast and ovarian cancers, but also found in tissue from lung cancers, brain cancers, and bone marrow. This module contains at least six members that are believed to be involved in either transcritional regulation (PDEF, H2AFO, NUCKS) or the ubiquitin proteasome pathway (PSMD7, SQSTM1, FLJ10111). We confirm these observations of coexpression by real-time RT–PCR analysis of mRNA extracted from four model breast epithelial cell lines.

Additional Information

© 2002 by Cold Spring Harbor Laboratory Press. The Authors acknowledge that six months after the full-issue publication date, the Article will be distributed under a Creative Commons CC-BY-NC License (Attribution-NonCommercial 4.0 International License, http://creativecommons.org/licenses/by-nc/4.0/). Received May 10, 2002; Accepted July 31, 2002. This work was supported by the National Human Genome Research Institute through grant 5K22-HG000047. The publication costs of this article were defrayed in part by payment of page charges. This article must therefore be hereby marked "advertisement" in accordance with 18 USC section 1734 solely to indicate this fact.

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