Protocol

Plant Bioinformatics

Volume 406 of the series Methods in Molecular Biology™ pp 365-386

Reaping the Benefits of SAGE

  • Stephen J. RobinsonAffiliated withAgriculture and Agri-Food, Saskatoon Research Centre
  • , Justin D. GuentherAffiliated withAgriculture and Agri-Food, Saskatoon Research Centre
  • , Christopher T. LewisAffiliated withAgriculture and Agri-Food, Saskatoon Research Centre
  • , Matthew G. LinksAffiliated withAgriculture and Agri-Food, Saskatoon Research Centre
  • , Isobel A.P. ParkinAffiliated withAgriculture and Agri-Food, Saskatoon Research Centre

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Summary

Serial analysis of gene expression (SAGE) is a powerful technique which yields a digital measure of gene expression through the sequencing of libraries of specific mRNA-derived fragments, namely SAGE tags. This chapter introduces the methods and software tools that are available for researchers to analyze gene expression through SAGE analysis. A detailed examination of SAGE analysis in Arabidopsis thaliana using the publicly available analysis tool, SaskSAGE, is provided. The use of this software allows the user to maximize the information gained from SAGE experiments in a model system with a fully sequenced genome.

Key Words

Serial analysis of gene expression expression profile novel transcripts Arabidopsis thaliana SaskSAGE