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
Genome-wide analysis reveals gene expression and metabolic network dynamics during embryo development in Arabidopsis
Daoquan Xiang,Prakash Venglat,Chabane Tibiche,Hui Yang,Eddy Risseeuw,Yongguo Cao,Vivijan Babic,Mathieu Cloutier,Wilf Keller,Edwin Wang,Gopalan Selvaraj,Raju Datla +11 more
TL;DR: Methods to isolate whole live Arabidopsis (Arabidopsis thaliana) embryos as young as zygote and perform genome-wide profiling of gene expression have generated comprehensive gene expression data sets for embryo development in Arabidops and may serve as an important foundational resource for other seed plants.
Journal ArticleDOI
The PEROXIN11 protein family controls peroxisome proliferation in Arabidopsis.
TL;DR: It is concluded that all five Arabidopsis PEX11 proteins promote peroxisome proliferation and that individual family members play specific roles in distinctPeroxisomal subtypes and environmental conditions and possibly in different steps of peroxISome proliferation.
Journal ArticleDOI
RACK1 mediates multiple hormone responsiveness and developmental processes in Arabidopsis
Jin-Gui Chen,Jin-Gui Chen,Hemayet Ullah,Brenda Temple,Jiansheng Liang,Jiansheng Liang,Jianjun Guo,Jose M. Alonso,Joseph R. Ecker,Alan M. Jones +9 more
TL;DR: Results provide the first genetic evidence that RACK1A is involved in multiple signal transduction pathways and mediates hormone responses and plays a regulatory role in multiple developmental processes.
Journal ArticleDOI
Plant methionine sulfoxide reductase A and B multigenic families.
TL;DR: It is reported that some MSR genes display organ-specific expression patterns and that those encoding plastidic MSRs are highly expressed in photosynthetic organs and it is shown that the expression of numerousMSR genes is enhanced by environmental conditions known to generate oxidative stress.
Journal ArticleDOI
Proteome Dynamics during Plastid Differentiation in Rice
Torsten Kleffmann,Anne von Zychlinski,Doris Russenberger,Matthias Hirsch-Hoffmann,Peter Gehrig,Wilhelm Gruissem,Sacha Baginsky +6 more
TL;DR: Early light-induced changes during chloroplast development of rice (Oryza sativa) chloroplasts were examined, and the transition from heterotrophic metabolism to photosynthesis-supported autOTrophic metabolism was already detectable 2 h after illumination and affected most essential metabolic modules.
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