International Mammalian Genome Society

17th International Mouse Genome Conference

9-12 November 2003, Braunschweig, Germany


POSTER 28 - CAP ANALYSIS GENE EXPRESSION (CAGE) FOR HIGH THROUGHPUT ANALYSIS OF TRANSCRIPTIONAL STARING POINT AND IDENTIFICATION OF PROMOTER USAGE

Carninci P
1) Laboratory for Genome Exploration Research Group, RIKEN Genomic Sciences Center (GSC), Yokohama Institute 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan. 2) Genome Science Laboratory, RIKEN, Wako main campus, Hirosawa 2-1 Wako, Japan.

Co-Authors: 1, 2) Shiraki T, 1) Kondo S, 1) Katayama S, 1, 2) Waki K, 1) Kasukawa T, 1) Kawaji H, 1, 2) Nakamura M, 1, 2) Kodzius R, 1) Arakawa T, 1) Fukuda S, 1) Sasaki D, 3) Podhajska A, 1) Kawai J, and 1, 2) Hayashizaki Y
Institutions: 1) Laboratory for Genome Exploration Research Group, RIKEN Genomic Sciences Center (GSC), Yokohama Institute 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan. 2) Genome Science Laboratory, RIKEN, Wako main campus, Hirosawa 2-1 Wako, Japan. 3) Department of Biotechnology Intercollegiate Faculty of Biotechnology University of Gdansk & Medical University of Gdansk ul Kladki 24 80-822 Gdansk, POLAND

We introduce CAGE, Cap Analysis Gene Expression, which is based on preparation and sequencing of concatamers of DNA tags deriving from the initial 20 nt from 5' end mRNAs. CAGE allows high-throughout gene expression and profiling of transcriptional starting site (TSP) including promoter usage analysis. By analyzing 4 libraries (brain, cortex, hippocampus and cerebellum) we finely redefined the TSP of 11-27% of the analyzed transcriptional units hit. CAGE tags frequency well correlated with other analytical technologies such as serial analysis of gene expression (SAGE) but additionally allow fine TSPs mapping, including tissue-specific ones. The high-throughput nature of this technology paves the way to understand gene networks by correlating promoter usage and gene transcriptional factor expression.


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