title: Plantmetabolomics.org: mass spectrometry-based Arabidopsis metabolomics--database and tools update.
abstract: The PlantMetabolomics (PM) database (http://www.plantmetabolomics.org) contains comprehensive targeted and untargeted mass spectrum metabolomics data for Arabidopsis mutants across a variety of metabolomics platforms. The database allows users to generate hypotheses about the changes in metabolism for mutants with genes of unknown function. Version 2.0 of PlantMetabolomics.org currently contains data for 140 mutant lines along with the morphological data. A web-based data analysis wizard allows researchers to select preprocessing and data-mining procedures to discover differences between mutants. This community resource enables researchers to formulate models of the metabolic network of Arabidopsis and enhances the research community's ability to formulate testable hypotheses concerning gene functions. PM features new web-based tools for data-mining analysis, visualization tools and enhanced cross links to other databases. The database is publicly available. PM aims to provide a hypothesis building platform for the researchers interested in any of the mutant lines or metabolites.
authors.affiliation: Bioinformatics and Computational Biology Program, Electrical and Computer Engineering Department, Biophysics and Molecular Biology and Virtual Reality Application Center, Iowa State University, Ames, IA 50011, USA.
authors.forename: Preeti
authors.initials: P
authors.lastname: Bais
authors.forename: Stephanie M
authors.initials: SM
authors.lastname: Moon-Quanbeck
authors.forename: Basil J
authors.initials: BJ
authors.lastname: Nikolau
authors.forename: Julie A
authors.initials: JA
authors.lastname: Dickerson
mesh_terms: D017360:Arabidopsis / Q000033:anatomy & histology / Q000235:genetics / Q000378:metabolism*; D016000:Cluster Analysis; D003196:Computer Graphics; D016208:Databases, Factual; D013058:Mass Spectrometry; D055442:Metabolome / Q000235:genetics; D055432:Metabolomics; D009154:Mutation; D025341:Principal Component Analysis; D012984:Software
references.citation: Bioinformatics. 2010 Sep 15;26(18):2347-8
references.pmid: 20656902
references.citation: Plant Physiol. 2010 Aug;153(4):1479-91
references.pmid: 20522724
references.citation: BMC Genomics. 2006 Jun 08;7:142
references.pmid: 16762068
references.citation: Plant Physiol. 2005 May;138(1):27-37
references.pmid: 15888675
references.citation: Plant Physiol. 2010 Aug;153(4):1506-20
references.pmid: 20566707
references.citation: Plant J. 2008 Feb;53(4):691-704
references.pmid: 18269577
references.citation: Biotechniques. 2007 Jul;43(1 Suppl):25-30
references.pmid: 17936939
references.citation: Plant Physiol. 2010 Feb;152(2):566-78
references.pmid: 20023150
references.citation: J Lipid Res. 2009 Apr;50 Suppl:S9-14
references.pmid: 19098281
references.citation: Bioinformatics. 2010 Sep 15;26(18):2345-6
references.pmid: 20647521
references.citation: Nucleic Acids Res. 2010 Jan;38(Database issue):D355-60
references.pmid: 19880382
references.citation: Science. 2003 Aug 1;301(5633):653-7
references.pmid: 12893945
references.citation: Am J Psychol. 1987 Fall-Winter;100(3-4):441-71
references.pmid: 3322052
references.citation: Front Plant Sci. 2011 Aug 22;2:40
references.pmid: 22645535
references.citation: Plant Physiol. 2010 Apr;152(4):1807-16
references.pmid: 20147492
references.citation: Genome Biol. 2004;5(10):R80
references.pmid: 15461798
references.citation: BMC Bioinformatics. 2006 Jan 06;7:3
references.pmid: 16398926