Publications of W. Weckwerth

Kruger, R., Wolschin, F., Weckwerth, W., Bettmer, J. & Lehmann, W. D. Plant protein phosphorylation monitored by capillary liquid chromatography-element mass spectrometry. Biochemical and Biophysical Research Communications 355, 89–96 (2007).

Larrainzar, E., Wienkoop, S., Weckwerth, W., Ladrera, R., Arrese-Igor, C. & Gonzalez, E. M. Medicago truncatula root nodule proteome analysis reveals differential plant and bacteroid responses to drought stress. Plant Physiology 144, 1495–1507 (2007).

Lehmann, W. D., Kruger, R., Salek, M., Hung, C. W., Wolschin, F. & Weckwerth, W. Neutral loss-based phosphopeptide recognition: A collection of caveats. Journal of Proteome Research 6, 2866–2873 (2007).

Mueller-Linow, M., Weckwerth, W. & Huett, M. T. Consistency analysis of metabolic correlation networks. BMC Systems Biology 1, 44 (2007).

Morgenthal, K., Weckwerth, W. & Steuer, R. Metabolomic networks in plants: Transitions from pattern recognition to biological interpretation. Biosystems 83, 108–117 (2006).

Wienkoop, S., Larrainzar, E., Niemann, M., Gonzalez, E. M., Lehmann, U. & Weckwerth, W. Stable isotope-free quantitative shotgun proteomics combined with sample pattern recognition for rapid diagnostics. Journal of Separation Science 29, 2793–2801 (2006).

Wienkoop, S. & Weckwerth, W. Relative and absolute quantitative shotgun proteomics: targeting low-abundance proteins in Arabidopsis thaliana. Journal of Experimental Botany 57, 1529–1535 (2006).

Boldt, R., Edner, C., Kolukisaoglu, U., Hagemann, M., Weckwerth, W., Wienkoop, S., Morgenthal, K. & Bauwe, H. D-GLYCERATE 3-KINASE, the last unknown enzyme in the photorespiratory cycle in Arabidopsis, belongs to a novel kinase family. Plant Cell 17, 2413–2420 (2005).

Glinski, M. & Weckwerth, W. Differential Multisite Phosphorylation of the Trehalose-6-phosphate Synthase Gene Family in Arabidopsis thaliana: A Mass Spectrometry-based Process for Multiparallel Peptide Library Phosphorylation Analysis. Molecular & Cellular Proteomics 4, 1614–1625 (2005).

Hummel, J., Keshvari, N., Weckwerth, W. & Selbig, J. Species-specific analysis of protein sequence motifs using mutual information. BMC Bioinformatics 6, 164 (2005).

Kopka, J., Schauer, N., Krueger, S., Birkemeyer, C., Usadel, B., Bergmueller, E., Doermann, P., Weckwerth, W., Gibon, Y., Stitt, M., Willmitzer, L., Fernie, A. R. & Steinhauser, D. GMD@CSB.DB: the Golm Metabolome Database. Bioinformatics 21, 1635–1638 (2005).

Morgenthal, K., Wienkoop, S., Scholz, M., Selbig, J. & Weckwerth, W. Correlative GC-TOF-MS-based metabolite profiling and LC-MS-based protein profiling reveal time-related systemic regulation of metabolite-protein networks and improve pattern recognition for multiple biomarker selection. Metabolomics 1, 109–121 (2005).

Wolschin, F., Lehmann, U., Glinski, M. & Weckwerth, W. An integrated strategy for identification and relative quantification of site-specific protein phosphorylation using liquid chromatography coupled to MS(2)/MS(3). Rapid Communications in Mass Spectrometry 19, 3626–3632 (2005).

Wolschin, F. & Weckwerth, W. Combining metal oxide affinity chromatography (MOAC) and selective mass spectrometry for robust identification of in vivo protein phosphorylation sites. Plant Methods 1, 9 (2005).

Wolschin, F., Wienkoop, S. & Weckwerth, W. Enrichment of phosphorylated proteins and peptides from complex mixtures using metal oxide/hydroxide affinity chromatography (MOAC). Proteomics 5, 4389–4397 (2005).

Weckwerth, W. Metabolomics - diagnostisches Tool und Schluesseltechnologie in der Systembiologie. Laborwelt 33–34 (2004). at <http://hdl.handle.net/11858/00-001M-0000-0014-2C49-9>

Weckwerth, W., Loureiro, M. E., Wenzel, K. & Fiehn, O. Differential metabolic networks unravel the effects of silent plant phenotypes. Proceedings of the National Academy of Sciences of the United States of America 101, 7809–7814 (2004).

Weckwerth, W., Wenzel, K. & Fiehn, O. Process for the integrated extraction identification, and quantification of metabolites, proteins and RNA to reveal their co-regulation in biochemical networks. Proteomics 4, 78–83 (2004).

Wienkoop, S., Glinski, M., Tanaka, N., Tolstikov, V., Fiehn, O. & Weckwerth, W. Linking protein fractionation with multidimensional monolithic reversed-phase peptide chromatography/mass spectrometry enhances protein identification from complex mixtures even in the presence of abundant proteins. Rapid Communications in Mass Spectrometry 18, 643–650 (2004).

Wienkoop, S., Zoeller, D., Ebert, B., Simon-Rosin, U., Fisahn, J., Glinski, M. & Weckwerth, W. Cell-specific protein profiling in Arabidopsis thaliana trichomes: identification of trichome-located proteins involved in sulfur metabolism and detoxification. Phytochemistry 65, 1641–1649 (2004).