An analysis of expression patterns of genes encoding proteins with catalytic activities

Cankaya M., Hernandez A. M., Ciftci M., Beydemir S., ÖZDEMİR H., Budak H., ...More

BMC Genomics, vol.8, 2007 (SCI-Expanded) identifier identifier

  • Publication Type: Article / Article
  • Volume: 8
  • Publication Date: 2007
  • Doi Number: 10.1186/1471-2164-8-232
  • Journal Name: BMC Genomics
  • Journal Indexes: Science Citation Index Expanded (SCI-EXPANDED), Scopus
  • Ondokuz Mayıs University Affiliated: No


Background: In situ hybridization (ISH) is a powerful method for visualizing gene expression patterns at the organismal level with cellular resolution. When automated, it is capable of determining the expression of a large number of genes. Results: The expression patterns of 662 genes that encode enzymes were determined by ISH in the mid-gestation mouse embryo, a stage that models the complexity of the adult organism. Forty-five percent of transcripts encoding metabolic enzymes (n = 297) showed a regional expression pattern. A similar percentage was found for the 190 kinases that were also analyzed. Many mRNAs encoding glycolytic and TCA cycle enzymes exhibited a characteristic expression pattern. The annotated expression patterns were deposited on the Genepaint database and are retrievable by user-defined queries including gene name and sites of expression. Conclusion: The 662 expression patterns discussed here comprised gene products with activities associated with catalysis. Preliminary analysis of these data revealed that a significant number of genes encoding housekeeping functions such as biosynthesis and catabolism were expressed regionally, so they could be used as tissue-specific gene markers. We found no difference in tissue specificity between mRNAs encoding housekeeping functions and those encoding components of signal transduction pathways, as exemplified by the kinases. © 2007 Cankaya et al; licensee BioMed Central Ltd.