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
Reactive oxygen species mediate pollen tube rupture to release sperm for fertilization in Arabidopsis
Qiaohong Duan,Daniel Kita,Daniel Kita,Eric A. Johnson,Mini Aggarwal,Laura Gates,Laura Gates,Hen-Ming Wu,Alice Y. Cheung +8 more
TL;DR: It is shown that FER controls the production of high levels of reactive oxygen species at the entrance to the female gametophyte to induce pollen tube rupture and sperm release, providing evidence for a RHO GTPase-based signalling mechanism to mediate sperm release for fertilization in plants.
Journal ArticleDOI
NIP6;1 is a boric acid channel for preferential transport of boron to growing shoot tissues in Arabidopsis.
TL;DR: It is proposed that during evolution, NIP5;1 and NIP6;1 were diversified in terms of both the specificity of their expression in plant tissues and their water permeation properties, while maintaining their ability to be induced under low B and their boric acid transport activities.
Journal ArticleDOI
Self-assembly of the plant cell wall requires an extensin scaffold
Maura C. Cannon,Kimberly Terneus,Qi Hall,Li Tan,Yumei Wang,Benjamin L. Wegenhart,Liwei Chen,Derek T. A. Lamport,Yuning Chen,Marcia J. Kieliszewski +9 more
TL;DR: It is concluded that self-assembling amphiphiles of lysine-rich RSH extensin form positively charged scaffolds in the cell plate that may template further orderly deposition of the new cross wall at cytokinesis.
Homeodomain Leucine Zipper Class I Genes in Arabidopsis. Expression Patterns and
TL;DR: Several HDZip I genes appear to regulate similar cellular processes, although in different organs or tissues and in response to different environmental signals.
Journal ArticleDOI
New Insights into the Biology of Cytokinin Degradation
TL;DR: The results corroborate the relevance of metabolic control in determining cytokinin activity and show using reporter gene and semiquantitative RT-PCR analyses regulation of individual CKX genes by cytokinIn, auxin, ABA, and phosphate starvation.
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