Publications of Zoran Nikoloski

Journal Article (195)

21.
Journal Article
Andreou, G.M.; Messer, M.; Tong, H.; Nikoloski, Z.; Laitinen, R. A.E.: Heritability of temperature-mediated flower size plasticity in Arabidopsis thaliana. Quantitative Plant Biology 4, e4 (2023)
22.
Journal Article
Hashemi, S.; Laitinen, R.; Nikoloski, Z.: Models and molecular mechanisms for trade-offs in the context of metabolism. Molecular Ecology (2023)
23.
Journal Article
Omranian, N.; Nikoloski, Z.: CUBCO+: prediction of protein complexes based on min-cut network partitioning into biclique spanned subgraphs. Applied Network Science 7, 71 (2022)
24.
Journal Article
Wiszniewski, A.A.G.; Uberegui, E.; Messer, M.; Sultanova, G.; Borghi, M.; Duarte, G. T.; Vicente, R.; Sageman-Furnas, K.; Fernie, A. R.; Nikoloski, Z. et al.; Laitinen, R. A.E.: Temperature-mediated flower size plasticity in Arabidopsis. iScience 25 (11), 105411 (2022)
25.
Journal Article
Laitinen, R. A. E.; Nikoloski, Z.: Strategies to identify and dissect trade-offs in plants. Molecular Ecology (2022)
26.
Journal Article
Orf, I.; Tenenboim, H.; Omranian, N.; Nikoloski, Z.; Fernie, A. R.; Lisec, J.; Brotman, Y.; Bromke, M.A.: Transcriptomic and Metabolomic Analysis of a Pseudomonas-Resistant versus a Susceptible Arabidopsis Accession. International Journal of Molecular Sciences 23 (20), 12087 (2022)
27.
Journal Article
Huß, S.; Judd, R. S.; Koper, K.; Maeda, H. A.; Nikoloski, Z.: An automated workflow that generates atom mappings for large-scale metabolic models and its application to Arabidopsis thaliana. The Plant Journal 111 (5), pp. 1486 - 1500 (2022)
28.
Journal Article
Mbebi, A. J.; Breitler, J.-C.; Bordeaux, M.; Sulpice, R.; McHale, M.; Tong, H.; Toniutti, L.; Castillo, J. A.; Bertrand, B.; Nikoloski, Z.: A comparative analysis of genomic and phenomic predictions of growth-related traits in 3-way coffee hybrids. G3: Genes, Genomes, Genetics 12 (9), jkac170 (2022)
29.
Journal Article
Matz, T.; Wang, Y.; Kulshreshtha, R.; Sampathkumar, A.; Nikoloski, Z.: Topological properties accurately predict cell division events and organization of shoot apical meristem in Arabidopsis thaliana. Development 149 (16), dev201024 (2022)
30.
Journal Article
Hashemi, S.; Razaghi-Moghadam, Z.; Laitinen, R.A.E.; Nikoloski, Z.: Relative flux trade-offs and optimization of metabolic network functionalities. Computational and Structural Biotechnology Journal 20, pp. 3963 - 3971 (2022)
31.
Journal Article
Liu, Z.; Østerlund, I.; Ruhnow, F.; Cao, Y.; Huang, G.; Cai, W.; Zhang, J.; Liang, W.; Nikoloski, Z.; Persson, S. et al.; Zhang, D.: Fluorescent cytoskeletal markers reveal associations between the actin and microtubule cytoskeleton in rice cells. Development 149 (12), dev.200415 (2022)
32.
Journal Article
Küken, A.; Langary, D.; Nikoloski, Z.: The hidden simplicity of metabolic networks is revealed by multireaction dependencies. Science Advances 8 (13), eabl6962 (2022)
33.
Journal Article
Tong, H.; Nankar, A.N.; Liu, J.; Todorova, V.; Ganeva, D.; Grozeva, S.; Tringovska, I.; Pasev, G.; Radeva-Ivanova, V.; Gechev, T. et al.; Kostova, D.; Nikoloski, Z.: Genomic prediction of morphometric and colorimetric traits in Solanaceous fruits. Horticulture Research 9, uhac072 (2022)
34.
Journal Article
Wendering, P.; Nikoloski, Z.: COMMIT: Consideration of metabolite leakage and community composition improves microbial community reconstructions. PLoS Computational Biology 18 (3), e1009906 (2022)
35.
Journal Article
Wendering, P.; Nikoloski, Z.: Genome-Scale Modeling Specifies the Metabolic Capabilities of Rhizophagus irregularis. mSystems 7 (1), e01216-21 (2022)
36.
Journal Article
Calderan-Rodrigues, M.J.; Luzarowski, M.; Monte Bello, C.C.; Minen, R.I.; Zühlke, B. M.; Nikoloski, Z.; Skirycz, A.; Caldana, C.: Proteogenic Dipeptides Are Characterized by Diel Fluctuations and Target of Rapamycin Complex-Signaling Dependency in the Model Plant Arabidopsis thaliana. Frontiers in Plant Science 12, 758933 (2021)
37.
Journal Article
Treves, H.; Küken, A.; Arrivault, S.; Ishihara, H.; Hoppe, I.; Erban, A.; Höhne, M.; Moraes, T. A.; Kopka, J.; Szymanski, J. et al.; Nikoloski, Z.; Stitt, M.: Carbon flux through photosynthesis and central carbon metabolism show distinct patterns between algae, C-3 and C-4 plants. Nature Plants 8, pp. 78 - 91 (2021)
38.
Journal Article
David, Z.; Swart, C.; Graf, A.; Arrivault, S.; Tillich, M.; Proost, S.; Nikoloski, Z.; Stitt, M.; Bock, R.; Mühlhaus, M. et al.; Boulouis, A.: Topology of the redox network during induction of photosynthesis as revealed by time-resolved proteomics in tobacco. Science Advances 7 (51), eabi8307 (2021)
39.
Journal Article
Hashemi, S.; Razaghi-Moghadam, Z.; Nikoloski, Z.: Identification of flux trade-offs in metabolic networks. Scientific Reports 11 (1), 23776 (2021)
40.
Journal Article
Angeleska, A.; Omranian, N.; Nikoloski, Z.: Coherent network partitions: Characterizations with cographs and prime graphs. Theoretical computer science 894, pp. 3 - 11 (2021)
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