Publications of Z. Nikoloski

Journal Article (164)

141.
Journal Article
Sajitz-Hermstein, M. & Nikoloski, Z. Restricted cooperative games on metabolic networks reveal functionally important reactions. Journal of Theoretical Biology 314, 192–203 (2012).
142.
Journal Article
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).
143.
Journal Article
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).
144.
Journal Article
Larhlimi, A., Blachon, S., Selbig, J. & Nikoloski, Z. Robustness of metabolic networks: A review of existing definitions. Biosystems 106, 1–8 (2011).
145.
Journal Article
Arnold, A. & Nikoloski, Z. A quantitative comparison of CalvinBenson cycle models. Trends in Plant Science 16, 676–683 (2011).
146.
Journal Article
Basler, G., Ebenhoeh, O., Selbig, J. & Nikoloski, Z. Mass-balanced randomization of metabolic networks. Bioinformatics 27, 1397–1403 (2011).
147.
Journal Article
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).
148.
Journal Article
Basler, G. & Nikoloski, Z. JMassBalance: mass-balanced randomization and analysis of metabolic networks. Bioinformatics 27, 2761–2762 (2011).
149.
Journal Article
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).
150.
Journal Article
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, 292 (2011).
151.
Journal Article
Hempel, S., Kurths, J., Koseska, A. & Nikoloski, Z. Inner Composition Alignment for Inferring Directed Networks from Short Time Series. Physical Review Letters 107, 054101 (2011).
152.
Journal Article
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, 326–336 (2011).
153.
Journal Article
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, 895–910 (2011).
154.
Journal Article
Nikoloski, Z., Grimbs, S., Klie, S. & Selbig, J. Complexity of automated gene annotation. Biosystems 104, 1–8 (2011).
155.
Journal Article
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, 23 (2011).
156.
Journal Article
Klie, S., Nikoloski, Z. & Selbig, J. Biological Cluster Evaluation for Gene Function Prediction. Journal of Computational Biology 17, 1–18 (2010).
157.
Journal Article
Nikoloski, Z., May, P. & Selbig, J. Algebraic connectivity may explain the evolution of gene regulatory networks. Journal of Theoretical Biology 267, 7–14 (2010).
158.
Journal Article
Sajitz-Hermstein, M. & Nikoloski, Z. A novel approach for determining environment-specific protein costs: the case of Arabidopsis thaliana. Bioinformatics 26, i582–i588 (2010).
159.
Journal Article
Childs, L., Nikoloski, Z., May, P. & Walther, D. Identification and classification of ncRNA molecules using graph properties. Nucleic Acids Research 37, e66 (2009).
160.
Journal Article
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, e7441 (2009).
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