Publications of Z. Nikoloski

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 (1), p. 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 (3), p. e1002612 (2012)

Larhlimi, A.; Blachon, S.; Selbig, J.; Nikoloski, Z.: Robustness of metabolic networks: A review of existing definitions. Biosystems 106 (1), pp. 1 - 8 (2011)

Arnold, A.; Nikoloski, Z.: A quantitative comparison of CalvinBenson cycle models. Trends in Plant Science 16 (12), pp. 676 - 683 (2011)

Basler, G.; Ebenhoeh, O.; Selbig, J.; Nikoloski, Z.: Mass-balanced randomization of metabolic networks. Bioinformatics 27 (10), pp. 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 (71), pp. 1168 - 1176 (2011)

Basler, G.; Nikoloski, Z.: JMassBalance: mass-balanced randomization and analysis of metabolic networks. Bioinformatics 27 (19), pp. 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 (2), pp. 212 - 223 (2011)

Hempel, S.; Koseska, A.; Nikoloski, Z.; Kurths, J.: Unraveling gene regulatory networks from time-resolved gene expression data - a measures comparison study. BMC Bioinformatics 12, p. 292 (2011)

Hempel, S.; Kurths, J.; Koseska, A.; Nikoloski, Z.: Inner Composition Alignment for Inferring Directed Networks from Short Time Series. Physical Review Letters 107 (5), p. 054101 (2011)

Lisec, J.; Romisch-Margl, L.; Nikoloski, Z.; Piepho, H. P.; Giavalisco, P.; Selbig, J.; Gierl, A.; Willmitzer, L.: Corn hybrids display lower metabolite variability and complex metabolite inheritance patterns. The Plant Journal 68 (2), pp. 326 - 336 (2011)

Mutwil, M.; Klie, S.; Tohge, T.; Giorgi, F. M.; Wilkins, O.; Campbell, M. M.; Fernie, A. R.; Usadel, B.; Nikoloski, Z.; Persson, S.: PlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven Species. The Plant Cell 23 (3), pp. 895 - 910 (2011)

Nikoloski, Z.; Grimbs, S.; Klie, S.; Selbig, J.: Complexity of automated gene annotation. Biosystems 104 (1), pp. 1 - 8 (2011)

Ruprecht, C.; Mutwil, M.; Saxe, F.; Eder, M.; Nikoloski, Z.; Persson, S.: Large-scale co-expression approach to dissect secondary cell wall formation across plant species. Frontiers in Plant Science 2, p. 23 (2011)

Klie, S.; Nikoloski, Z.; Selbig, J.: Biological Cluster Evaluation for Gene Function Prediction. Journal of Computational Biology 17, pp. 1 - 18 (2010)

Nikoloski, Z.; May, P.; Selbig, J.: Algebraic connectivity may explain the evolution of gene regulatory networks. Journal of Theoretical Biology 267 (1), pp. 7 - 14 (2010)

Sajitz-Hermstein, M.; Nikoloski, Z.: A novel approach for determining environment-specific protein costs: the case of Arabidopsis thaliana. Bioinformatics 26 (18), pp. i582 - i588 (2010)

Childs, L.; Nikoloski, Z.; May, P.; Walther, D.: Identification and classification of ncRNA molecules using graph properties. Nucleic Acids Research 37 (9), p. e66 (2009)

Szymanski, J.; Jozefczuk, S.; Nikoloski, Z.; Selbig, J.; Nikiforova, V.; Catchpole, G.; Willmitzer, L.: Stability of Metabolic Correlations under Changing Environmental Conditions in Escherichia coli - A Systems Approach. PLoS One 4 (10), p. e7441 (2009)

Basler, G.; Nikoloski, Z.; Ebenhoeh, O.; Handorf, T.: Biosynthetic potentials from species-specific metabolic networks. Genome Informatics 20, pp. 135 - 148 (2008)