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, 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)

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 (2), pp. 172 - 188 (2008)

Nikoloski, Z.; Grimbs, S.; May, P.; Selbig, J.: Metabolic networks are NP-hard to reconstruct. Journal of Theoretical Biology 254 (4), pp. 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, pp. 99 - 112 (2008)

de Abreu e Lima, F.; Leifels, L.; Nikoloski, Z.: Regression-Based Modeling of Complex Plant Traits Based on Metabolomics Data. In: Plant Metabolomics: Methods and Protocols, pp. 321 - 327 (Ed. António, C.). Humana Press, New York (2018)

Küken, A.; Nikoloski, Z.: Genome-scale modeling of photorespiratory pathway manipulation. In: Methods in Molecular Biology, Vol. 1653, pp. 195 - 202. Elsevier, Cambridge, MA (2017)

Omranian, N.; Nikoloski, Z.: Computational Approaches to Study Gene Regulatory Networks. In: Plant gene Regulatory Networks, Vol. 1629, pp. 283 - 295. Springer, heidelberg (2017)

Kleessen, S.; Nikoloski, Z.: Computational Approaches to Dissect and Understand Mechanisms of Adaptation. In: Molecular Mechanisms in Plant Adaptation, pp. 193 - 215. Wiley-Blackwell, Malden (2015)

Angeleska, A.; Kleessen, S.; Nikoloski, Z.: The Sequence Reconstruction Problem. In: Discrete and Topological Models in Molecular Biology, pp. 23 - 43 (Eds. Jonoska , N.; Saito, M.). Springer-Verlag, Berlin, Heidelberg (2014)