MediPlEx - a tool to combine in silico & experimental gene expression profiles of the model legume Medicago truncatula

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Henckel, Kolja; Küster, Helge; Stutz, Leonhard J.; Goesmann, Alexander: MediPlEx - a tool to combine in silico & experimental gene expression profiles of the model legume Medicago truncatula. In: BMC Research Notes 3 (2010), 262. DOI: http://dx.doi.org/10.1186/1756-0500-3-262

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To cite the version in the repository, please use this identifier: https://doi.org/10.15488/471

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Sum total of downloads: 104




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Background: Expressed Sequence Tags (ESTs) are in general used to gain a first insight into gene activities from a species of interest. Subsequently, and typically based on a combination of EST and genome sequences, microarray-based expression analyses are performed for a variety of conditions. In some cases, a multitude of EST and microarray experiments are conducted for one species, covering different tissues, cell states, and cell types. Under these circumstances, the challenge arises to combine results derived from the different expression profiling strategies, with the goal to uncover novel information on the basis of the integrated datasets. Findings: Using our new analysis tool, MediPlEx (MEDIcago truncatula multiPLe EXpression analysis), expression data from EST experiments, oligonucleotide microarrays and Affymetrix GeneChips® can be combined and analyzed, leading to a novel approach to integrated transcriptome analysis. We have validated our tool via the identification of a set of well-characterized AM-specific and AM-induced marker genes, identified by MediPlEx on the basis of in silico and experimental gene expression profiles from roots colonized with AM fungi. Conclusions: MediPlEx offers an integrated analysis pipeline for different sets of expression data generated for the model legume Medicago truncatula. As expected, in silico and experimental gene expression data that cover the same biological condition correlate well. The collection of differentially expressed genes identified via MediPlEx provides a starting point for functional studies in plant mutants.
License of this version: CC BY 2.0
Document Type: article
Publishing status: publishedVersion
Issue Date: 2010
Appears in Collections:Naturwissenschaftliche Fakultät

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pos. country downloads
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1 image of flag of Germany Germany 93 89.42%
2 image of flag of Russian Federation Russian Federation 3 2.88%
3 image of flag of Norway Norway 2 1.92%
4 image of flag of No geo information available No geo information available 1 0.96%
5 image of flag of Kuwait Kuwait 1 0.96%
6 image of flag of Italy Italy 1 0.96%
7 image of flag of France France 1 0.96%
8 image of flag of China China 1 0.96%
9 image of flag of Brazil Brazil 1 0.96%

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