MSEA: metabolite set enrichment analysis in the MeltDB metabolomics software platform: metabolic profiling of Corynebacterium glutamicum as an example

Persicke M, Rückert C, Plassmeier J, Stutz L, Kessler N, Kalinowski J, Goesmann A, Neuweger H (2012)
Metabolomics 8(2): 310-322.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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Abstract / Bemerkung
Gene set enrichment analysis (GSEA) has been successfully employed in transcriptomics and proteomics research for over 5 years. We have applied a modified GSEA approach to metabolomics, called metabolite set enrichment analysis (MSEA), and have integrated this method into the MeltDB platform. With the novel integrated functionality, we evaluate the applicability of the approach for metabolomics research by analyzing the metabolic profiles of industrial amino acid producer strains of Corynebacterium glutamicum. Metabolite sets are obtained from metabolic pathways defined in the KEGG and the newly created CglCyc databases. In the first experiment using MSEA, the metabolic profiling analyses compared glucose- and acetate-grown strains, and, in the second, a production strain series in which the carbon flow is shifted step-wise from the lysine pathway to the branching threonine, isoleucine, and methionine pathways. By identifying changes of the metabolic profile MSEA was able to identify the metabolic pathways activated while utilizing different carbon sources or those that have been genetically modified. The presented experimental results are publicly available at http://meltdb.cebitec.uni-bielefeld.de.
Stichworte
Metabolite set enrichment analysis; Corynebacterium glutamicum
Erscheinungsjahr
2012
Zeitschriftentitel
Metabolomics
Band
8
Ausgabe
2
Seite(n)
310-322
ISSN
1573-3882
eISSN
1573-3890
Page URI
https://pub.uni-bielefeld.de/record/2405255

Zitieren

Persicke M, Rückert C, Plassmeier J, et al. MSEA: metabolite set enrichment analysis in the MeltDB metabolomics software platform: metabolic profiling of Corynebacterium glutamicum as an example. Metabolomics. 2012;8(2):310-322.
Persicke, M., Rückert, C., Plassmeier, J., Stutz, L., Kessler, N., Kalinowski, J., Goesmann, A., et al. (2012). MSEA: metabolite set enrichment analysis in the MeltDB metabolomics software platform: metabolic profiling of Corynebacterium glutamicum as an example. Metabolomics, 8(2), 310-322. doi:10.1007/s11306-011-0311-6
Persicke, M., Rückert, C., Plassmeier, J., Stutz, L., Kessler, N., Kalinowski, J., Goesmann, A., and Neuweger, H. (2012). MSEA: metabolite set enrichment analysis in the MeltDB metabolomics software platform: metabolic profiling of Corynebacterium glutamicum as an example. Metabolomics 8, 310-322.
Persicke, M., et al., 2012. MSEA: metabolite set enrichment analysis in the MeltDB metabolomics software platform: metabolic profiling of Corynebacterium glutamicum as an example. Metabolomics, 8(2), p 310-322.
M. Persicke, et al., “MSEA: metabolite set enrichment analysis in the MeltDB metabolomics software platform: metabolic profiling of Corynebacterium glutamicum as an example”, Metabolomics, vol. 8, 2012, pp. 310-322.
Persicke, M., Rückert, C., Plassmeier, J., Stutz, L., Kessler, N., Kalinowski, J., Goesmann, A., Neuweger, H.: MSEA: metabolite set enrichment analysis in the MeltDB metabolomics software platform: metabolic profiling of Corynebacterium glutamicum as an example. Metabolomics. 8, 310-322 (2012).
Persicke, Marcus, Rückert, Christian, Plassmeier, Jens, Stutz, Leonhard, Kessler, Nikolas, Kalinowski, Jörn, Goesmann, Alexander, and Neuweger, Heiko. “MSEA: metabolite set enrichment analysis in the MeltDB metabolomics software platform: metabolic profiling of Corynebacterium glutamicum as an example”. Metabolomics 8.2 (2012): 310-322.