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
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Journal ArticleDOI
Brassinosteroids, the Sixth Class of Phytohormones: A Molecular View from the Discovery to Hormonal Interactions in Plant Development and Stress Adaptation
Ana Laura G L Peres,Jose Sergio M. Soares,Rafael Garcia Tavares,Germanna Lima Righetto,Marco A T Zullo,N Bhushan Mandava,Marcelo Menossi +6 more
TL;DR: An overview of BRs’ discovery as well as recent findings on their interactions with other phytohormones at the transcriptional and post-transcriptional levels are provided, in addition to clarifying how their network works to modulate plant growth, development, and responses to biotic and abiotic stresses.
Journal ArticleDOI
INCURVATA2 Encodes the Catalytic Subunit of DNA Polymerase α and Interacts with Genes Involved in Chromatin-Mediated Cellular Memory in Arabidopsis thaliana
TL;DR: Genetic and molecular interactions between chromatin remodeling factors and components of the DNA replication machinery have been identified in Schizosaccharomyces pombe, indicating that some epigenetic marks are replicated simultaneously to DNA with the participation of theDNA replication complexes.
Journal ArticleDOI
Plastid biogenesis, between light and shadows
TL;DR: An overview of the components and functions of the plastid genetic machinery, theplastid division apparatus, and protein import to and targeting inside the organelle is presented here, to gain a systems-level understanding of thePlastid-related elements of the networks of plant cellular development.
Journal ArticleDOI
Arabidopsis VILLIN1 Generates Actin Filament Cables That Are Resistant to Depolymerization
Shanjin Huang,Robert Robinson,Lisa Y. Gao,Tracie K. Matsumoto,Arnaud Brunet,Laurent Blanchoin,Christopher J. Staiger +6 more
TL;DR: It is proposed that VLN1 is a major regulator of the formation and stability of actin filament bundles in plant cells and that it functions to maintain the cable network even in the presence of stimuli that result in depolymerization of other actin arrays.
Journal ArticleDOI
Identification of a Xylogalacturonan Xylosyltransferase Involved in Pectin Biosynthesis in Arabidopsis
Jacob Krüger Jensen,Susanne Sørensen,Jesper Harholt,Naomi Geshi,Yumiko Sakuragi,Isabel Moller,Joris Zandleven,Adriana Bernal,Niels Bjerg Jensen,Charlotte Mehlin Sorensen,Markus Pauly,Gerrit Beldman,William G.T. Willats,Henrik Vibe Scheller,Henrik Vibe Scheller +14 more
TL;DR: Results confirm that the XGD1 protein is a XGA xylosyltransferase, shown by expression of a fluorescent fusion protein in N. benthamiana to be localized in the Golgi vesicles as expected for a glycosyl transferase involved in pectin biosynthesis.
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