Transcript Profiling in Arabidopsis with Genome Tiling Microarrays
METADATA ONLY
Loading...
Author / Creator
Date
2013
Publication Type
Book Chapter
ETH Bibliography
yes
Citations
Altmetric
METADATA ONLY
Data
Rights / License
Abstract
Microarray technology is at present a standardized workflow for genome-wide expression analysis. Whole-genome tiling microarrays have emerged as an important platform for flexible and comprehensive expression profiling. In this chapter we describe a detailed standardized workflow for experiments assessing the transcriptome of Arabidopsis using tiling arrays and provide useful hints for critical steps from experimental design to data analysis. Although the protocol is optimized for AGRONOMICS1 arrays, it can readily be adapted to other tiling arrays. AGRONOMICS1 is the first platform that enables strand-specific expression analysis of the Arabidopsis genome with a single array. Moreover, it includes all perfect match probes from the original ATH1 array, allowing readily integration with the large existing ATH1 knowledge base. This workflow is designed for the analysis of raw data for any number of samples and it does not pose any particular hardware requirements. © 2013 Springer Science+Business Media New York.
Permanent link
Publication status
published
Book title
Tiling Arrays : Methods and Protocols
Journal / series
Methods in Molecular Biology
Volume
1067
Pages / Article No.
35 - 49
Publisher
Humana Press
Event
Edition / version
Methods
Geographic location
Date collected
Date created
Subject
AGRONOMICS1; Arabidopsis; Genome tiling array; Microarray; Transcriptome
Organisational unit
03554 - Gruissem, Wilhelm (emeritus) / Gruissem, Wilhelm (emeritus)