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
Functional genomic analysis of CAF-1 mutants in Arabidopsis thaliana.
TL;DR: It is suggested that CAF-1 functions in heterochromatin formation, as it is found that hypomethylation of the genome, which has only mild effects on the development of wild-type plants, completely arrested development of CAF -1 mutants.
Journal ArticleDOI
A Hormone and Proteome Approach to Picturing the Initial Metabolic Events During Plasmodiophora brassicae Infection on Arabidopsis
Sylvie Devos,Kris Laukens,Peter Deckers,Dominique Van Der Straeten,Tom Beeckman,Dirk Inzé,Harry Van Onckelen,Erwin Witters,Els Prinsen +8 more
TL;DR: It is postulate that, at the very first stages of Plasmodiophora infection, plasmodial-produced cytokinins trigger a local re-initiation of cell division in the root cortex, which acts as a sink for host-derived indole-3-acetic acid, carbohydrates, nitrogen, and energy to maintain the pathogen and to trigger gall development.
Journal ArticleDOI
Different Cold-Signaling Pathways Function in the Responses to Rapid and Gradual Decreases in Temperature.
Satoshi Kidokoro,Koshi Yoneda,Hironori Takasaki,Fuminori Takahashi,Kazuo Shinozaki,Kazuko Yamaguchi-Shinozaki +5 more
TL;DR: It is revealed that plants recognize cold stress as two different signals, rapid and gradual temperature decreases, and induce expression of the DREB1 genes, which efficiently control the acquisition of freezing tolerance using two different signaling pathways in response to a gradual temperature decrease during seasonal changes and a sudden temperature drop during the night.
Journal ArticleDOI
SERK and APOSTART. Candidate genes for apomixis in Poa pratensis.
Emidio Albertini,Gianpiero Marconi,Lara Reale,Gianni Barcaccia,Andrea Porceddu,Francesco Ferranti,Mario Falcinelli +6 more
TL;DR: It is proposed that, in nucellar cells of apomictic genotypes, PpSERK is the switch that channels embryo sac development and that it may also redirect signaling gene products to compartments other than their typical ones.
Journal ArticleDOI
Nitrile-specifier proteins involved in glucosinolate hydrolysis in Arabidopsis thaliana.
Ralph Kissen,Atle M. Bones +1 more
TL;DR: It is shown that AtNSPs belonging to a new family of A. thaliana proteins structurally related to AtESP divert product formation from myrosinase-catalyzed glucosinolate hydrolysis and, thereby, likely affect the biological consequences of glucosInolate degradation.
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