Publications of Z. Nikoloski

Mbebi, A. J.; Tong, H.; Nikoloski, Z.: L2,1-norm regularized multivariate regression model with applications to genomic prediction. Bioinformatics 37 (18), pp. 2896 - 2904 (2021)

Omranian, N.; Angeleska, A.; Nikoloski, Z.: PC2P: parameter-free network-based prediction of protein complexes. Bioinformatics 37 (1), pp. 73 - 81 (2021)

Pries, C.; Razaghi-Moghadam, Z.; Kopka, J.; Nikoloski, Z.: Integration of relative metabolomics and transcriptomics time-course data in a metabolic model pinpoints effects of ribosome biogenesis defects on Arabidopsis thaliana metabolism. Scientific Reports 11 (1), 4787 (2021)

Razaghi-Moghadam, Z.; Sokolowska, E.; Sowa, M.A.; Skirycz, A.; Nikoloski, Z.: Combination of network and molecule structure accurately predicts competitive inhibitory interactions. Computational and Structural Biotechnology Journal 19, pp. 2170 - 2178 (2021)

Seep, L.; Razaghi-Moghadam, Z.; Nikoloski, Z.: Reaction lumping in metabolic networks for application with thermodynamic metabolic flux analysis. Scientific Reports 11, 8544 (2021)

Tong, H.; Küken, A.; Razaghi-Moghadam, Z.; Nikoloski, Z.: Characterization of effects of genetic variants via genome-scale metabolic modelling. Cellular and Molecular Life Sciences 78, pp. 5123 - 5138 (2021)

Tong, H.; Nikoloski, Z.: Machine learning approaches for crop improvement: Leveraging phenotypic and genotypic big data. Journal of Plant Physiology 257, 153354 (2021)

Nowak, J.; Gennermann, K.; Persson, S.; Nikoloski, Z.: CytoSeg 2.0: automated extraction of actin filaments. Bioinformatics 36 (9), pp. 2950 - 2951 (2020)

Clemente-Moreno, M.; Omranian, N.; Sáez, P.; Figueroa, C.; Del-Saz, N.; Elso, M.; Poblete, L.; Orf, I.; Cuadros-Inostroza, A.; Cavieres, L.A. et al.; Bravo, L.; Fernie, A. R.; Ribas-Carbó, M.; Flexas, J.; Nikoloski, Z.; Brotman, Y.; Gago, J.: Low temperature tolerance of the Antarctic species Deschampsia antarctica: a complex metabolic response associated with nutrient remobilization. Plant, Cell and Environment 43 (6), pp. 1376 - 1393 (2020)

Correa, S. M.; Alseekh, S.; Atehortúa, L.; Brotman, Y.; Ríos-Estepa, R.; Fernie, A. R.; Nikoloski, Z.: Model-assisted identification of metabolic engineering strategies for Jatropha curcas lipid pathways. The Plant Journal (accepted)

Correa, S. M.; Fernie, A. R.; Nikoloski, Z.; Brotman, Y.: Towards model-driven characterization and manipulation of plant lipid metabolism. Progress in Lipid Research 80, 101051 (2020)

Küken, A.; Gennermann, K.; Nikoloski, Z.: Characterization of maximal enzyme catalytic rates in central metabolism of Arabidopsis thaliana. The Plant Journal 103 (6), pp. 2168 - 2177 (2020)

Lyall, R.; Nikoloski, Z.; Gechev, T.: Comparative analysis of ros network genes in extremophile eukaryotes. International Journal of Molecular Sciences 21 (23), pp. 1 - 27 (2020)

Razaghi-Moghadam, Z.; Nikoloski, Z.: Supervised Learning of Gene Regulatory Networks. Current Protocols in Plant Biology 5 (2), e20106 (2020)

Robaina-Estévez, S.; Nikoloski, Z.: Flux-based hierarchical organization of Escherichia coli’s metabolic network. PLoS Computational Biology 16 (4), e1007832 (2020)

Tong, H.; Küken, A.; Nikoloski, Z.: Integrating molecular markers into metabolic models improves genomic selection for Arabidopsis growth. Nature Communications 11 (1), 2410 (2020)

Angeleska, A.; Nikoloski, Z.: Coherent network partitions. Discrete applied mathematics 266, pp. 283 - 290 (2019)

Clemente-Moreno, J. M.; Omranian, N.; Sáez, P.; Figueroa, C. M.; Del-Saz, N.; Elso, M.; Poblete, L.; Orf, I.; Cuadros-Inostroza, A.; Cavieres, L. et al.; Bravo, L.; Fernie, A. R.; Ribas-Carbó, M.; Flexas, J.; Nikoloski, Z.; Brotman, Y.; Gago, J.: Cytochrome respiration pathway and sulphur metabolism sustain stress tolerance to low temperature in the Antarctic species Colobanthus quitensis. New Phytologist 225 (2), pp. 754 - 768 (2019)

Ferrari, C.; Proost, S.; Janowski, M.; Becker, J.; Nikoloski, Z.; Bhattacharya, D.; Price, D.; Tohge, T.; Bar-Even, A.; Fernie, A. R. et al.; Stitt, M.; Mutwil, M.: Kingdom-wide comparison reveals the evolution of diurnal gene expression in Archaeplastida. Nature Communications 10, 737 (2019)

Küken, A.; Nikoloski, Z.: Computational Approaches to Design and Test Plant Synthetic Metabolic Pathways. Plant Physiology 179 (3), pp. 894 - 906 (2019)