Publications of Z. Nikoloski

Toepfer, N.; Scossa, F.; Fernie, A. R.; Nikoloski, Z.: Variability of Metabolite Levels Is Linked to Differential Metabolic Pathways in Arabidopsis's Responses to Abiotic Stresses. PLoS Computational Biology 10 (6), e1003656 (2014)

Sajitz-Hermstein, M.; Nikoloski, Z.: Structural control of metabolic flux. PLoS Computational Biology 9 (12), e1003368 (2013)

Hochberg, U.; Degu, A.; Toubiana, D.; Gendler, T.; Nikoloski, Z.; Rachmilevitch, S.; Fait, A.: Metabolic profiling and network analysis reveal coordinated changes in grapevine water stress response. BMC Plant Biology 13 (184) (2013)

Toepfer, N.; Nikoloski, Z.: Large-scale modeling provides insights into Arabidopsis's acclimation to changing light and temperature conditions. Plant Signaling & Behavior 8 (9), e25480 (2013)

Kleessen, S.; Klie, S.; Nikoloski, Z.: Data Integration through Proximity-Based Networks Provides Biological Principles of Organization across Scales. The Plant Cell 25 (6), pp. 1917 - 1927 (2013)

Toepfer, N.; Caldana, C.; Grimbs, S.; Willmitzer, L.; Fernie, A. R.; Nikoloski, Z.: Integration of Genome-Scale Modeling and Transcript Profiling Reveals Metabolic Pathways Underlying Light and Temperature Acclimation in Arabidopsis. The Plant Cell 25 (4), pp. 1197 - 1211 (2013)

Neigenfind, J.; Grimbs, S.; Nikoloski, Z.: On the relation between reactions and complexes of (bio)chemical reaction networks. Journal of Theoretical Biology 317, pp. 359 - 365 (2013)

Omranian, N.; Klie, S.; Mueller-Roeber, B.; Nikoloski, Z.: Network-Based Segmentation of Biological Multivariate Time Series. PLoS One 8 (5), p. e62974 (2013)

Sulpice, R.; Nikoloski, Z.; Tschoep, H.; Antonio, C.; Kleeson, S.; Lahrlimi, A.; Selbig, J.; Hirofumi, I.; Gibon, Y.; Fernie, A. R. et al.; Stitt, M.: Impact of the carbon and nitrogen supply on relationships and connectivity between metabolism and biomass in a broad panel of Arabidopsis accessions. Plant Physiology 162 (1), pp. 347 - 363 (2013)

Szecowka, M.; Heise, R.; Tohge, T.; Nunes-Nesi, A.; Vosloh, D.; Huege, J.; Feil, R.; Lunn, J.; Nikoloski, Z.; Stitt, M. et al.; Fernie, A. R.; Arrivault, S.: Metabolic Fluxes in an Illuminated Arabidopsis Rosette. The Plant Cell 25 (2), pp. 694 - 714 (2013)

Winck, F. V.; Arvidsson, S.; Mauricio Riano-Pachon, D.; Hempel, S.; Koseska, A.; Nikoloski, Z.; Urbina Gomez, D. A.; Rupprecht, J.; Mueller-Roeber, B.: Genome-Wide Identification of Regulatory Elements and Reconstruction of Gene Regulatory Networks of the Green Alga Chlamydomonas reinhardtii under Carbon Deprivation. PLoS One 8 (11), e79909 (2013)

Xue, W.; Batushansky, A.; Toubiana, D.; Botnick, I.; Szymanski, J.; Khozin-Goldberg, I.; Nikoloski, Z.; Lewinsohn, E.; Fait, A.: The Investment in Scent: Time-Resolved Metabolic Processes in Developing Volatile-Producing Nigella sativa L. Seeds. PLoS One 8 (9), e73061 (2013)

Zakharova, A.; Nikoloski, Z.; Koseska, A.: Dimensionality reduction of multistable biological systems. Bulletin of Mathematical Biology 75 (3), pp. 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), pp. 1 - 21 (2012)

Basler, G.; Grimbs, S.; Nikoloski, Z.: Optimizing metabolic pathways by screening for feasible synthetic reactions. Biosystems 109 (2), pp. 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 (1-2), pp. 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, p. 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 (14), pp. 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, p. 217 (2012)

Kleessen, S.; Nikoloski, Z.: Dynamic regulatory on/off minimization for biological systems under internal temporal perturbations. BMC Systems Biology 6 (1), p. 16 (2012)