Publikationen von Z. Nikoloski

Zakharova, A., Nikoloski, Z. & Koseska, A. Dimensionality reduction of multistable biological systems. Bulletin of Mathematical Biology 75, 373–392 (2013).

Araujo, W. L., Nunes-Nesi, A., Nikoloski, Z., Sweetlove, L. J. & Fernie, A. R. Metabolic control and regulation of the tricarboxylic acid cycle in photosynthetic and heterotrophic plant tissues. Plant, Cell and Environment 35, 1–21 (2012).

Basler, G., Grimbs, S. & Nikoloski, Z. Optimizing metabolic pathways by screening for feasible synthetic reactions. Biosystems 109, 186–191 (2012).

Güell, O., Sagués, F., Basler, G., Nikoloski, Z. & Serrano, M. S. Assessing the significance of knockout cascades in metabolic networks. Journal of Computational Interdisciplinary Sciences 3, 45–53 (2012).

Kleessen, S., Antonio, C., Sulpice, R., Laitinen, R., Fernie, A. R., Stitt, M. & Nikoloski, Z. Structured patterns in geographic variability of metabolic phenotypes in Arabidopsis thaliana. Nature Communications 3, 1319 (2012).

Kleessen, S., Araujo, W. L., Fernie, A. R. & Nikoloski, Z. Model-based Confirmation of Alternative Substrates of Mitochondrial Electron Transport Chain. Journal of Biological Chemistry 287, 11122–11131 (2012).

Kleessen, S., Fernie, A. R. & Nikoloski, Z. A computational framework for evaluating the efficiency of Arabidopsis accessions in response to nitrogen stress reveals important metabolic mechanisms. Frontiers in Plant Science 3, 217 (2012).

Kleessen, S. & Nikoloski, Z. Dynamic regulatory on/off minimization for biological systems under internal temporal perturbations. BMC Systems Biology 6, 16 (2012).

Klie, S., Caldana, C. & Nikoloski, Z. Compromise of multiple time-resolved transcriptomics experiments identifies tightly regulated functions. Frontiers in Plant Science 3, 249 (2012).

Klie, S. & Nikoloski, Z. The Choice between MapMan and Gene Ontology for Automated Gene Function Prediction in Plant Science. Frontiers in Genetics 3, 115 (2012).

Omidbakhshfard, M. A., Omranian, N., Ahmadi, F. S., Nikoloski, Z. & Mueller-Roeber, B. Effect of salt stress on genes encoding translation-associated proteins in Arabidopsis thaliana. Plant Signaling & Behavior 7, 1095–1102 (2012).

Omranian, N., Mueller-Roeber, B. & Nikoloski, Z. PageRank-based identification of signaling crosstalk from transcriptomics data: the case of Arabidopsis thaliana. Molecular BioSystems 8, 1121–1127 (2012).

Osorio, S., Alba, R., Nikoloski, Z., Kochevenko, A., Fernie, A. R. & Giovannoni, J. J. Integrative Comparative Analyses of Transcript and Metabolite Profiles from Pepper and Tomato Ripening and Development Stages Uncovers Species-Specific Patterns of Network Regulatory Behavior. Plant Physiology 159, 1713–1729 (2012).

Sajitz-Hermstein, M. & Nikoloski, Z. Restricted cooperative games on metabolic networks reveal functionally important reactions. Journal of Theoretical Biology 314, 192–203 (2012).

Toepfer, N., Jozefczuk, S. & Nikoloski, Z. Integration of time-resolved transcriptomics data with flux-based methods reveals stress-induced metabolic adaptation in Escherichia coli. BMC Systems Biology 6, 148 (2012).

Toubiana, D., Semel, Y., Tohge, T., Beleggia, R., Cattivelli, L., Rosental, L., Nikoloski, Z., Zamir, D., Fernie, A. R. & Fait, A. Metabolic Profiling of a Mapping Population Exposes New Insights in the Regulation of Seed Metabolism and Seed, Fruit, and Plant Relations. PLoS Genetics 8, e1002612 (2012).

Basler, G., Ebenhoeh, O., Selbig, J. & Nikoloski, Z. Mass-balanced randomization of metabolic networks. Bioinformatics 27, 1397–1403 (2011).

Basler, G., Grimbs, S., Ebenhoeh, O., Selbig, J. & Nikoloski, Z. Evolutionary significance of metabolic network properties. Journal of the Royal Society Interface 9, 1168–1176 (2011).

Basler, G. & Nikoloski, Z. JMassBalance: mass-balanced randomization and analysis of metabolic networks. Bioinformatics 27, 2761–2762 (2011).

Grimbs, S., Arnold, A., Koseka, A., Kurths, J., Selbig, J. & Nikoloski, Z. Spatiotemporal dynamics of the Calvin cycle: Multistationarity and symmetry breaking instabilities. Biosystems 103, 212–223 (2011).