Publications of Z. Nikoloski

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).

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).

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).

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).

Nikoloski, Z., Grimbs, S., Klie, S. & Selbig, J. Complexity of automated gene annotation. Biosystems 104, 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, 23 (2011).

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

Nikoloski, Z., May, P. & Selbig, J. Algebraic connectivity may explain the evolution of gene regulatory networks. Journal of Theoretical Biology 267, 7–14 (2010).

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

Childs, L., Nikoloski, Z., May, P. & Walther, D. Identification and classification of ncRNA molecules using graph properties. Nucleic Acids Research 37, 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, e7441 (2009).

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

Brandes, U., Delling, D., Gaertler, M., Gorke, R., Hoefer, M., Nikoloski, Z. & Wagner, D. On modularity clustering. IEEE Transactions on Knowledge and Data Engineering 20, 172–188 (2008).

Nikoloski, Z., Grimbs, S., May, P. & Selbig, J. Metabolic networks are NP-hard to reconstruct. Journal of Theoretical Biology 254, 807–816 (2008).

Nikoloski, Z., Grimbs, S., Selbig, J. & Ebenhoeh, O. Hardness and Approximability of the Inverse Scope Problem. Algorithms in Bioinformatics, Wabi 2008 5251, 99–112 (2008).

de Abreu e Lima, F., Leifels, L. & Nikoloski, Z. in Plant Metabolomics: Methods and Protocols (ed. António, C.) 321–327 (Humana Press, 2018). doi:10.1007/978-1-4939-7819-9_23

Küken, A. & Nikoloski, Z. in Methods in Molecular Biology 1653, 195–202 (Elsevier, 2017).

Omranian, N. & Nikoloski, Z. in Plant gene Regulatory Networks 1629, 283–295 (Springer, 2017).

Kleessen, S. & Nikoloski, Z. in Molecular Mechanisms in Plant Adaptation 193–215 (Wiley-Blackwell, 2015). at <http://hdl.handle.net/11858/00-001M-0000-0029-24BA-0>

Angeleska, A., Kleessen, S. & Nikoloski, Z. in Discrete and Topological Models in Molecular Biology (eds. Jonoska , N. & Saito, M.) 23–43 (Springer-Verlag, 2014). doi:10.1007/978-3-642-40193-0__2