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PlantRGS: a web server for the identification of most suitable candidate reference genes for quantitative gene expression studies in plants

NIPGR Digital Knowledge Repository (NDKR)

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Title PlantRGS: a web server for the identification of most suitable candidate reference genes for quantitative gene expression studies in plants
 
Creator Patel, Ravi K.
Jain, Mukesh
 
Subject gene expression
reference gene
microarray
normalization
web server
 
Description Normalization of quantitative gene expression data with a suitable reference gene is essential for accurate and reliable results. However, the availability and choice of most suitable reference gene(s) showing uniform expression across all the experimental conditions remain a drawback. We have developed a web server, PlantRGS (http://www.nipgr.res.in/PlantRGS), for the identification of most suitable candidate reference gene(s) at the whole-genome level using microarray data for quantitative gene expression studies in plants. Microarray data from more than 11 000 tissue samples for nine plant species have been included in the PlantRGS for meta-analysis. The web server provides a user-friendly graphical user interface-based analysis tool for the identification of most suitable reference genes in the selected plant species under user-defined experimental conditions. Various parameter options and output formats will help users to investigate desired number of most suitable reference genes with wide range of expression levels. Validation of results revealed that novel reference genes identified by the PlantRGS outperforms the traditionally used reference genes in terms of expression stability. We anticipate that the PlantRGS will provide a platform for the identification of most suitable reference gene(s) under given experimental conditions and facilitate quantitative gene expression studies in plants.
This study was supported financially by the
Department of Biotechnology, Government of India,
New Delhi, India, under the Next Generation
Challenge Programme on Chickpea Genomics and
IYBA scheme, and core grant from the NIPGR.
 
Date 2014-04-30T06:08:37Z
2014-04-30T06:08:37Z
2011
25 August 2011
 
Type Article
 
Identifier DNA Res., 18(6): 463-470
http://hdl.handle.net/123456789/207
 
Language en
 
Publisher Oxford University Press