Publications of J. Kopka

Journal Article (228)

201.
Journal Article
Lisso, J., Steinhauser, D., Altmann, T., Kopka, J. & Muessig, C. Identification of brassinosteroid-related genes by means of transcript co-response analyses. Nucleic Acids Research 33, 2685–2696 (2005).
202.
Journal Article
Lohse, S., Schliemann, W., Ammer, C., Kopka, J., Strack, D. & Fester, T. Organization and metabolism of plastids and mitochondria in arbuscular mycorrhizal roots of Medicago truncatula. Plant Physiology 139, 329–340 (2005).
203.
Journal Article
Nikiforova, V. J., Kopka, J., Tolstikov, V., Fiehn, O., Hopkins, L., Hawkesford, M. J., Hesse, H. & Hoefgen, R. Systems rebalancing of metabolism in response to sulfur deprivation, as revealed by metabolome analysis of arabidopsis plants. Plant Physiology 138, 304–318 (2005).
204.
Journal Article
Rautengarten, C., Steinhauser, D., Buessis, D., Stintzi, A., Schaller, A., Kopka, J. & Altmann, T. Inferring Hypotheses on Functional Relationships of Genes: Analysis of the Arabidopsis thaliana Subtilase Gene Family. PLoS Computational Biology 1, e40 (2005).
205.
Journal Article
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. & Kopka, J. GC-MS libraries for the rapid identification of metabolites in complex biological samples. FEBS Letters 579, 1332–1337 (2005).
206.
Journal Article
Scholz, M., Kaplan, F., Guy, C. L., Kopka, J. & Selbig, J. Non-linear PCA: a missing data approach. Bioinformatics 21, 3887–3895 (2005).
207.
Journal Article
Urbanczyk-Wochniak, E., Baxter, C., Kolbe, A., Kopka, J., Sweetlove, L. J. & Fernie, A. R. Profiling of diurnal patterns of metabolite and transcript abundance in potato (Solanum tuberosum) leaves. Planta 221, 891–903 (2005).
208.
Journal Article
Bino, R. J., Hall, R. D., Fiehn, O., Kopka, J., Saito, K., Draper, J., Nikolau, B. J., Mendes, P., Roessner-Tunali, U., Beale, M. H., Trethewey, R. N., Lange, B. M., Wurtele, E. S. & Sumner, L. W. Potential of metabolomics as a functional genomics tool. Trends in Plant Science 9, 418–425 (2004).
209.
Journal Article
Jenkins, H., Hardy, N., Beckmann, M., Draper, J., Smith, A. R., Taylor, J., Fiehn, O., Goodacre, R., Bino, R. J., Hall, R., Kopka, J., Lane, G. A., Lange, B. M., Liu, J. R., Mendes, P., Nikolau, B. J., Oliver, S. G., Paton, N. W., Rhee, S., Roessner-Tunali, U., Saito, K., Smedsgaard, J., Sumner, L. W., Wang, T., Walsh, S., Wurtele, E. S. & Kell, D. B. A proposed framework for the description of plant metabolomics experiments and their results. Nature Biotechnology 22, 1601–1606 (2004).
210.
Journal Article
Kaplan, F., Kopka, J., Haskell, D. W., Zhao, W., Schiller, K. C., Gatzke, N., Sung, D. Y. & Guy, C. L. Exploring the temperature-stress metabolome of Arabidopsis. Plant Physiology 136, 4159–4168 (2004).
211.
Journal Article
Klotke, J., Kopka, J., Gatzke, N. & Heyer, A. G. Impact of soluble sugar concentrations on the acquisition of freezing tolerance in accessions of Arabidopsis thaliana with contrasting cold adaptation - evidence for a role of raffinose in cold acclimation. Plant Cell and Environment 27, 1395–1404 (2004).
212.
Journal Article
Luedemann, A., Weicht, D., Selbig, J. & Kopka, J. PaVESy: Pathway visualization and editing system. Bioinformatics 20, 2841–2844 (2004).
213.
Journal Article
Steinhauser, D., Junker, B. H., Luedemann, A., Selbig, J. & Kopka, J. Hypothesis-driven approach to predict transcriptional units from gene expression data. Bioinformatics 20, 1928–1939 (2004).
214.
Journal Article
Steinhauser, D., Usadel, B., Luedemann, A., Thimm, O. & Kopka, J. CSB.DB: a comprehensive systems-biology database. Bioinformatics 20, 3647–3651 (2004).
215.
Journal Article
Birkemeyer, C., Kolasa, A. & Kopka, J. Comprehensive chemical derivatization for gas chromatography-mass spectrometry-based multi-targeted profiling of the major phytohormones. Journal of Chromatography A 993, 89–102 (2003).
216.
Journal Article
Hunt, L., Mills, L. N., Pical, C., Leckie, C. P., Aitken, F. L., Kopka, J., Mueller-Roeber, B., McAinsh, M. R., Hetherington, A. M. & Gray, J. E. Phospholipase C is required for the control of stomatal aperture by ABA. Plant Journal 34, 47–55 (2003).
217.
Journal Article
Urbanczyk-Wochniak, E., Luedemann, A., Kopka, J., Selbig, J., Roessner-Tunali, U., Willmitzer, L. & Fernie, A. R. Parallel analysis of transcript and metabolic profiles: a new approach in systems biology. EMBO Reports 4, 989–993 (2003).
218.
Journal Article
Wagner, C., Sefkow, M. & Kopka, J. Construction and application of a mass spectral and retention time index database generated from plant GC/EI-TOF-MS metabolite profiles. Phytochemistry 62, 887–900 (2003).
219.
Journal Article
Bohmert, K., Balbo, I., Kopka, J., Mittendorf, V., Nawrath, C., Poirier, Y., Tischendorf, G., Trethewey, R. N. & Willmitzer, L. Transgenic Arabidopsis plants can accumulate polyhydroxybutyrate to up to 4% of their fresh weight. Planta 211, 841–845 (2000).
220.
Journal Article
Fiehn, O., Kopka, J., Doermann, P., Altmann, T., Trethewey, R. N. & Willmitzer, L. Metabolite profiling for plant functional genomics. Nature Biotechnology 18, 1157–1161 (2000).
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