GENEVESTIGATOR. Arabidopsis Microarray Database and Analysis Toolbox
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TLDR
Genevestigator as mentioned in this paper is a web-browser interface for gene expression analysis using Affymetrix GeneChip data, which allows users to retrieve the expression patterns of individual genes throughout chosen environmental conditions, growth stages, or organs.Abstract:
High-throughput gene expression analysis has become a frequent and powerful research tool in biology. At present, however, few software applications have been developed for biologists to query large microarray gene expression databases using a Web-browser interface. We present GENEVESTIGATOR, a database and Web-browser data mining interface for Affymetrix GeneChip data. Users can query the database to retrieve the expression patterns of individual genes throughout chosen environmental conditions, growth stages, or organs. Reversely, mining tools allow users to identify genes specifically expressed during selected stresses, growth stages, or in particular organs. Using GENEVESTIGATOR, the gene expression profiles of more than 22,000 Arabidopsis genes can be obtained, including those of 10,600 currently uncharacterized genes. The objective of this software application is to direct gene functional discovery and design of new experiments by providing plant biologists with contextual information on the expression of genes. The database and analysis toolbox is available as a community resource at https://www.genevestigator.ethz.ch.read more
Citations
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Journal ArticleDOI
Homogalacturonan synthesis in Arabidopsis thaliana requires a Golgi-localized protein with a putative methyltransferase domain.
Grégory Mouille,Marie-Christine Ralet,Céline Cavelier,Cathlene Eland,Delphine Effroy,Kian Hématy,Lesley McCartney,Hoai Nam Truong,Virginie Gaudon,Jean-François Thibault,Alan Marchant,Herman Höfte +11 more
TL;DR: The results lead to the hypothesis that QUA2 is a pectin MT, and that polymerization and methylation of homogalacturonan are interdependent reactions.
Journal ArticleDOI
Proteome changes in Arabidopsis thaliana roots upon exposure to Cd2
TL;DR: Altering in the root proteome of hydroponically grown Arabidopsis thaliana plants treated with 10 microM Cd(2+) for 24 h triggers the synthesis of phytochelatins, glutathione-derived metal-binding peptides, shown here as PC2 accumulation.
The EAR-motif of the Cys2/His2-type Zinc Finger Protein Zat7 Plays a Key Role in the Defense Response of Arabidopsis to
Sultan Ciftci-Yilmaz,Mustafa Morsy,Luhua Song,Alicia Coutu,Beth A. Krizek,Michael W. Lewis,Daniel Warren,John C. Cushman,Erin L. Connolly,Ron Mittler +9 more
Journal ArticleDOI
Additive contribution of AMT1;1 and AMT1;3 to high‐affinity ammonium uptake across the plasma membrane of nitrogen‐deficient Arabidopsis roots
Dominique Loqué,Lixing Yuan,Soichi Kojima,Alain Gojon,Judith Wirth,Sonia Gazzarrini,Keiki Ishiyama,Hideki Takahashi,Nicolaus von Wirén +8 more
TL;DR: An additive contribution of AMT1;1 and AMT3;3 to the overall ammonium uptake capacity in Arabidopsis roots under nitrogen-deficiency conditions is suggested.
Journal ArticleDOI
Function of MYB domain transcription factors in abiotic stress and epigenetic control of stress response in plant genome.
TL;DR: This review focuses on the role of MYB transcription factors in the regulation of various stress responses in general, highlighting on recent advances in understanding of the involvement of this class of transcription factor in epigenetic regulation of stress response in plant genome.
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