5′-end SAGE for the analysis of transcriptional start sites (original) (raw)
- Letter
- Published: 08 August 2004
- Yutaka Suzuki2 na1,
- Yasuhiro Kasai3 na1,
- Kei Morohoshi1,
- Tomoyuki Yamada3,
- Jun Sese3,
- Shinichi Morishita3,
- Sumio Sugano2 &
- …
- Kouji Matsushima1
Nature Biotechnology volume 22, pages 1146–1149 (2004)Cite this article
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Abstract
Identification of the mRNA start site is essential in establishing the full-length cDNA sequence of a gene and analyzing its promoter region, which regulates gene expression. Here we describe the development of a 5′-end serial analysis of gene expression (5′ SAGE) that can be used to globally identify transcriptional start sites and the frequency of individual mRNAs. Of the 25,684 5′ SAGE tags in the HEK293 human cell library, 19,893 matched to the human genome. Among 15,448 tags in one locus of the genome, 85.8%–96.1% of the 5′ SAGE tags were assigned within −500 to +200 nt of mRNA start sites using the RefSeq, UniGene and DBTSS databases. This technique should facilitate 5′-end transcriptome analysis in a variety of cells and tissues.
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Acknowledgements
This work was supported by Grant-in-Aid for Scientific Research on Priority Areas (C) “Medical Genome Science” from the Ministry of Education, Culture, Sports, Science and Technology of Japan.
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- Yutaka Suzuki and Yasuhiro Kasai: These authors contributed equally to this work.
Authors and Affiliations
- Department of Molecular Preventive Medicine, School of Medicine, The University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan
Shin-ichi Hashimoto, Kei Morohoshi & Kouji Matsushima - Department of Virology, Institute of Medical Science, The University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan
Yutaka Suzuki & Sumio Sugano - Department of Computational Biology, Graduate School of Frontier Science, The University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan
Yasuhiro Kasai, Tomoyuki Yamada, Jun Sese & Shinichi Morishita
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Correspondence toKouji Matsushima.
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Hashimoto, Si., Suzuki, Y., Kasai, Y. et al. 5′-end SAGE for the analysis of transcriptional start sites.Nat Biotechnol 22, 1146–1149 (2004). https://doi.org/10.1038/nbt998
- Received: 20 January 2004
- Accepted: 07 June 2004
- Published: 08 August 2004
- Issue Date: 01 September 2004
- DOI: https://doi.org/10.1038/nbt998