Literature DB >> 14630670

MetaGeneAlyse: analysis of integrated transcriptional and metabolite data.

Carsten O Daub1, Sebastian Kloska, Joachim Selbig.   

Abstract

UNLABELLED: New techniques in sample preparation allow high throughput analysis of samples on the transcriptional as well as on the metabolic level. We present a service accessible via the web that allows the analysis of integrated data sets that combine gene-expression data and metabolic data. After uploading, data sets can be normalized, clustered by various methods and results can be graphically visualized. All calculations are carried out on a server, so even time- and memory-consuming analyses can be done independently of the performance of the client. AVAILABILITY: The service is accessible via web-interface at http://metagenealyse.mpimp-golm.mpg.de/

Mesh：

Year:  2003        PMID： 14630670     DOI： 10.1093/bioinformatics/btg321

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  17 in total

Review 1.  Extension of the visualization tool MapMan to allow statistical analysis of arrays, display of corresponding genes, and comparison with known responses.

Authors:  Björn Usadel; Axel Nagel; Oliver Thimm; Henning Redestig; Oliver E Blaesing; Natalia Palacios-Rojas; Joachim Selbig; Jan Hannemann; Maria Conceição Piques; Dirk Steinhauser; Wolf-Rüdiger Scheible; Yves Gibon; Rosa Morcuende; Daniel Weicht; Svenja Meyer; Mark Stitt
Journal:  Plant Physiol       Date:  2005-07       Impact factor: 8.340

2.  Enhancement of plant metabolite fingerprinting by machine learning.

Authors:  Ian M Scott; Cornelia P Vermeer; Maria Liakata; Delia I Corol; Jane L Ward; Wanchang Lin; Helen E Johnson; Lynne Whitehead; Baldeep Kular; John M Baker; Sean Walsh; Anuja Dave; Tony R Larson; Ian A Graham; Trevor L Wang; Ross D King; John Draper; Michael H Beale
Journal:  Plant Physiol       Date:  2010-06-21       Impact factor: 8.340

3.  Metabolic profiling of Arabidopsis thaliana epidermal cells.

Authors:  Berit Ebert; Daniela Zöller; Alexander Erban; Ines Fehrle; Jürgen Hartmann; Annette Niehl; Joachim Kopka; Joachim Fisahn
Journal:  J Exp Bot       Date:  2010-02-11       Impact factor: 6.992

4.  Inter-laboratory reproducibility of fast gas chromatography-electron impact-time of flight mass spectrometry (GC-EI-TOF/MS) based plant metabolomics.

Authors:  J William Allwood; Alexander Erban; Sjaak de Koning; Warwick B Dunn; Alexander Luedemann; Arjen Lommen; Lorraine Kay; Ralf Löscher; Joachim Kopka; Royston Goodacre
Journal:  Metabolomics       Date:  2009-07-24       Impact factor: 4.290

5.  Metabolome phenotyping of inorganic carbon limitation in cells of the wild type and photorespiratory mutants of the cyanobacterium Synechocystis sp. strain PCC 6803.

Authors:  Marion Eisenhut; Jan Huege; Doreen Schwarz; Hermann Bauwe; Joachim Kopka; Martin Hagemann
Journal:  Plant Physiol       Date:  2008-10-22       Impact factor: 8.340

6.  Genome-wide investigation and transcriptome analysis of the WRKY gene family in Gossypium.

Authors:  Mingquan Ding; Jiadong Chen; Yurong Jiang; Lifeng Lin; YueFen Cao; Minhua Wang; Yuting Zhang; Junkang Rong; Wuwei Ye
Journal:  Mol Genet Genomics       Date:  2014-09-05       Impact factor: 3.291

7.  Medicago truncatula root nodule proteome analysis reveals differential plant and bacteroid responses to drought stress.

Authors:  Estíbaliz Larrainzar; Stefanie Wienkoop; Wolfram Weckwerth; Rubén Ladrera; Cesar Arrese-Igor; Esther M González
Journal:  Plant Physiol       Date:  2007-06-01       Impact factor: 8.340

8.  Systems rebalancing of metabolism in response to sulfur deprivation, as revealed by metabolome analysis of Arabidopsis plants.

Authors:  Victoria J Nikiforova; Joachim Kopka; Vladimir Tolstikov; Oliver Fiehn; Laura Hopkins; Malcolm J Hawkesford; Holger Hesse; Rainer Hoefgen
Journal:  Plant Physiol       Date:  2005-04-15       Impact factor: 8.340

9.  Towards a system level understanding of non-model organisms sampled from the environment: a network biology approach.

Authors:  Tim D Williams; Nil Turan; Amer M Diab; Huifeng Wu; Carolynn Mackenzie; Katie L Bartie; Olga Hrydziuszko; Brett P Lyons; Grant D Stentiford; John M Herbert; Joseph K Abraham; Ioanna Katsiadaki; Michael J Leaver; John B Taggart; Stephen G George; Mark R Viant; Kevin J Chipman; Francesco Falciani
Journal:  PLoS Comput Biol       Date:  2011-08-25       Impact factor: 4.475

10.  Recent progress in the development of metabolome databases for plant systems biology.

Authors:  Atsushi Fukushima; Miyako Kusano
Journal:  Front Plant Sci       Date:  2013-04-04       Impact factor: 5.753
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