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The Golm Metabolome Database: a database for GC-MS based metabolite profiling

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Metabolomics

Part of the book series: Topics in Current Genetics ((TCG,volume 18))

Abstract

In the post-genomic era, biological science continues a transition from a predominantlyqualitative towards an increasingly quantitative science. Genomic, transcriptomic, proteomic, andnow metabolomic technologies significantly contribute to the generation of huge amounts of data. Thesedata, which typically describe changes in gene expression or changes in protein and metabolite pools,cannot effectively be analysed and interpreted by computer based programming if access is only providedthrough traditional publication schemes. Therefore ‘-omics’ data sets require formalisedrepresentation and access through databases. Otherwise important information will be lost which mayserve as reference data for current and future science. Transcript and protein profiling is dominatedby few almost comprehensive technologies. In contrast, the metabolomic field will require multipleanalytical profiling approaches to cover the chemical multitude of primary and secondary metabolism.As a consequence, technology-oriented metabolomics databases start to emerge. We will use GC-TOF-MS-basedmetabolite profiling as an example for the prototypical design of central database objects and structures.The focus will be on the required detailed information for the archiving of metabolite fingerprintingand profiling data sets. Special consideration is given to aspects of maintaining information sufficientand necessary for the experimental reproduction of metabolite identification and quantification results.Both aspects are essential for the sustainable use of GC-TOF-MS-based metabolite profiling and forthe comparison to other metabolomics technologies.

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Authors and Affiliations

  1. Max Planck Institute of Molecular Plant Physiology (MPI-MP), Am Muehlenberg 1, 14476, Potsdam-Golm, Germany

    Jan Hummel, Dirk Walther & Joachim Kopka

  2. University of Potsdam, Institute of Biochemistry and Biology, c/o MPI-MP, Am Muehlenberg 1, 14476, Potsdam-Golm, Germany

    Joachim Selbig

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  1. Jan Hummel
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  2. Joachim Selbig
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  3. Dirk Walther
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  4. Joachim Kopka
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Correspondence to Joachim Kopka .

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Jens Nielsen Michael C. Jewett

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© 2007 Springer-Verlag Berlin Heidelberg

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Hummel, J., Selbig, J., Walther, D., Kopka, J. (2007). The Golm Metabolome Database: a database for GC-MS based metabolite profiling. In: Nielsen, J., Jewett, M.C. (eds) Metabolomics. Topics in Current Genetics, vol 18. Springer, Berlin, Heidelberg. https://doi.org/10.1007/4735_2007_0229

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