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
Stress induced and nuclear localized HIPP26 from Arabidopsis thaliana interacts via its heavy metal associated domain with the drought stress related zinc finger transcription factor ATHB29
TL;DR: Experiments with modified HIPP26 indicate that the isoprenylation plays a role in the spatial distribution in the nucleus, and interaction of different members of the HIPP family with related zinc finger transcription factors revealed a specific interaction of ATHB29 with several HIPP proteins.
Journal ArticleDOI
The Puf family of RNA-binding proteins in plants: phylogeny, structural modeling, activity and subcellular localization
Patrick P.C. Tam,Isabelle Barrette-Ng,Dawn M. Simon,Dawn M. Simon,Michael W C Tam,Amanda L Ang,Douglas G. Muench +6 more
TL;DR: The Puf family of RNA-binding proteins in plants consists of a greater number of members than any other model species studied to date, which suggests that these proteins may be involved in a wide range of post-transcriptional regulatory events that are important in providing plants with the ability to respond rapidly to changes in environmental conditions and throughout development.
Journal ArticleDOI
Lanosterol biosynthesis in plants.
TL;DR: Phylogenetic reconstructions reveal that lanosterol synthases are broadly distributed in eudicots but evolved independently from those in animals and fungi, and novel catalytic motifs establish that plant lanosterl synthases comprise a third catalytically distinct class of lanosterols synthase.
Journal ArticleDOI
Arabidopsis FAB1/PIKfyve Proteins Are Essential for Development of Viable Pollen
TL;DR: Genetic transmission analysis revealed that failure to generate double mutant lines was entirely due to inviability of pollen carrying mutant alleles of both FAB1A and FAB 1B, demonstrating a crucial role for PtdIns(3,5)P2 in modulating the dynamics of vacuolar rearrangement essential for successful pollen development.
Journal ArticleDOI
Mining the Arabidopsis thaliana genome for highly-divergent seven transmembrane receptors
TL;DR: To identify divergent seven-transmembrane receptor (7TMR) candidates from the Arabidopsis thaliana genome, multiple protein classification methods were combined, including both alignment-based and alignment-free classifiers, which resolved problems in optimally training individual classifiers using limited and divergent samples, and increased stringency for candidate proteins.
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