Frequently Asked Questions
Q. References?
A.
Mass Spectral Tag (MST): Schauer, N., Steinhauser, D., Strelkov, S., Schomburg, D., Allison, G., Moritz, T., Lundgren, K., Roessner-Tunali, U., Forbes, M.G., Willmitzer, L., Fernie, A.R., and Kopka, J. (2005). GC-MS libraries for the rapid identification of metabolites in complex biological samples. FEBS Lett 579, 1332-1337. [Link]
Normalized Response: Kopka, J., in Saito, K., Dixon, R.A., Willmitzer, L. (Eds.), Biotechnology in Agriculture and Forestry. Springer, Berlin Heidelberg, Germany, 2006, p. 3. [Link]
Data pre-processing (baseline correction, peak alignment, and deconvolution): Jonsson, P., Johansson, A.I., Gullberg, J., Trygg, J., A, J., Grung, B., Marklund, S., Sjostrom, M., Antti, H., and Moritz, T. (2005). High-throughput data analysis for detecting and identifying differences between samples in GC/MS-based metabolomic analyses. Anal Chem 77, 5635-5642. [Link]
Extracting peak list: Jonsson, P., Stenlund, H., Moritz, T., Trygg, J., Sjostrom, M., Verheij, E.R., Lindberg, J., Schuppe-Koistinen, I., and Antti H. (2006). A strategy for modelling dynamic responses in metabolic samples characterized by GC/MS. Metabolomics 2, 135-143. [Preview]
GC-MS-based metabolite profiling: Kusano, M., Fukushima, A., Arita, M., Jonsson, P., Moritz, T., Kobayashi, M., Hayashi, N., Tohge, T., and Saito, K. (2007). Unbiased characterization of genotype-dependent metabolic regulations by metabolomic approach in Arabidopsis thaliana. BMC Syst Biol 1, 53. [PDF]
Normalization (CCMN): Redestig, H., Fukushima, A., Stenlund, H., Moritz, T., Arita, M., Saito, K., and Kusano, M. (2009). Compensation for systematic cross-contribution improves normalization of mass spectrometry based metabolomics data. Anal Chem 81, 7974-7980. [Link]
MetMask: Redestig, H., Kusano, M., Fukushima, A., Matsuda, F., Saito, K., and Arita, M. (2010). Consolidating metabolite identifiers to enable contextual and multi-platform metabolomics data analysis. BMC Bioinformatics 11, 214. [PDF]
This site is maintained by Miyako Kusano and Atsushi Fukushima.