Overview
- SAGE, LongSAGE, SuperSAGE, DeepSAGE, and GMAT protocols
- Correction of technology-related artifacts in SAGE
- Duplicate ditag analysis in LongSAGE
- Statistical comparison of two or more SAGE libraries
- Identifying non-specific SAGE tags by context of gene expression
- Detailed, annotated, and fully tested protocols written by experienced SAGE researchers
Part of the book series: Methods in Molecular Biology (MIMB, volume 387)
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Table of contents (15 protocols)
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Front Matter
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Tag Extraction and Analysis
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Front Matter
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Back Matter
Keywords
About this book
Serial Analysis of Gene Expression (SAGE): Digital Gene Expression Profiling facilitates the introduction of SAGE into the laboratory, and provides a framework for interpreting and comparing data derived from SAGE experiments. Of the several methods of genetic profiling available, only SAGE measures the expression of both known and unknown genes. SAGE studies encompass 50,000 tags and can provide detailed knowledge of the 2000 most highly expressed genes in the tissue sample. The SAGE protocols presented are detailed, fully annotated, and tested, and are all written by experienced SAGE researchers from around the world. Part 1 is dedicated to experimental procedures of SAGE and related methods including aRNA LongSAGE, SuperSAGE, DeepSAGE, and GMAT. Part 2 provides methods for extraction and filtration of tags, analysis of ditag populations, and completing statistically correct comparisons of gene expression profiles.
Comparative transcriptomics enables scientists to understand the underlying genetics of biological changes such as development, disease, crop yield, and resistance. SAGE analysis is also used to obtain unknown tags, which can be used as gene-specific primers in Rapid Amplification of cDNA Ends (RACE) reactions to generate full-length transcripts for cloning and sequencing. This book will be an indispensable tool for any lab engaged in genetic profiling and comparative transcriptomics, and will help many laboratories to successfully implement tag-based sequencing methods and procedures and obtain comprehensive, useful, and interpretative data.
Editors and Affiliations
Bibliographic Information
Book Title: Serial Analysis of Gene Expression (SAGE)
Book Subtitle: Methods and Protocols
Editors: Kåre Lehmann Nielsen
Series Title: Methods in Molecular Biology
DOI: https://doi.org/10.1007/978-1-59745-454-4
Publisher: Humana Totowa, NJ
eBook Packages: Springer Protocols
Copyright Information: Humana Press 2008
Hardcover ISBN: 978-1-58829-676-4Published: 05 June 2007
Softcover ISBN: 978-1-61737-712-9Published: 19 November 2010
eBook ISBN: 978-1-59745-454-4Published: 05 February 2008
Series ISSN: 1064-3745
Series E-ISSN: 1940-6029
Edition Number: 1
Number of Pages: X, 208
Number of Illustrations: 42 b/w illustrations
Topics: Human Genetics, Cell Biology, Biochemistry, general