Publications of Z. Nikoloski

Gago, J., Daloso, D. M., Figueroa, C. M., Flexas, J., Fernie, A. R. & Nikoloski, Z. Relationships of Leaf Net Photosynthesis, Stomatal Conductance, and Mesophyll Conductance to Primary Metabolism: A Multispecies Meta-Analysis Approach. Plant Physiology 171, 265–279 (2016).

Omranian, N., Eloundou-Mbebi, J. M. O., Mueller-Roeber, B. & Nikoloski, Z. Gene regulatory network inference using fused LASSO on multiple data sets. Scientific Reports 6, (2016).

Basler, G., Küken, A., Fernie, A. R. & Nikoloski, Z. Photorespiratory Bypasses Lead to Increased Growth in Arabidopsis thaliana: Are Predictions Consistent with Experimental Evidence? Frontiers in Bioengineering and Biotechnology 4, (2016).

Basler, G., Nikoloski, Z., Larhlimi, A., Barabasi, A.-L. & Liu, Y.-Y. Control of fluxes in metabolic networks. Genome Research 26, 956–968 (2016).

Beleggia, R., Rau, D., Laido, G., Platani, C., Nigro, F., Fragasso, M., De Vita, P., Scossa, F., Fernie, A. R., Nikoloski, Z. & Papa, R. Evolutionary Metabolomics Reveals Domestication-Associated Changes in Tetraploid Wheat Kernels. Molecular Biology and Evolution 33, 1740–1753 (2016).

Eloundou-Mbebi, J. M. O., Küken, A., Omranian, N., Kleessen, S., Neigenfind, J., Basler, G. & Nikoloski, Z. A network property necessary for concentration robustness. Nature Communications 7, (2016).

Estevez, S. R. & Nikoloski, Z. Metabolic Network Constrains Gene Regulation of C4 Photosynthesis: The Case of Maize. Plant & Cell Physiology 57, 933–943 (2016).

Florez-Sarasa, I. D., Ribas-Carbo, M., Fernandez Del-Saz, N., Schwahn, K., Nikoloski, Z., Fernie, A. R. & Flexas, J. Unravelling the invivo regulation and metabolic role of the alternative oxidase pathway in C-3 species under photoinhibitory conditions. New Phytologist 212, 66–79 (2016).

Liu, Z., Omranian, N., Neumetzler, L., Wang, T., Herter, T., Usadel, B., Demura, T., Giavalisco, P., Nikoloski, Z. & Persson, S. A transcriptional and metabolic framework for secondary wall formation in arabidopsis. Plant Physiology 172, 1334–1351 (2016).

Orf, I., Timm, S., Bauwe, H., Fernie, A. R., Hagemann, M., Kopka, J. & Nikoloski, Z. Can cyanobacteria serve as a model of plant photorespiration? - a comparative meta-analysis of metabolite profiles. Journal of Experimental Botany 67, 2941–2952 (2016).

Ruprecht, C., Mendrinna, A., Tohge, T., Sampathkumar, A., Klie, S., Fernie, A. R., Nikoloski, Z., Persson, S. & Mutwil, M. FamNet: A Framework to Identify Multiplied Modules Driving Pathway Expansion in Plants. Plant Physiology 170, 1878–1894 (2016).

Sajitz-Hermstein, M. & Nikoloski, Z. Functional centrality as a predictor of shifts in metabolic flux states. BMC research notes 9, (2016).

Sajitz-Hermstein, M. & Nikoloski, Z. Multi-objective shadow prices point at principles of metabolic regulation. Biosystems [Elektronische Ressource]: Journal of Biological and Information Processing Sciences 146, 91–101 (2016).

Sajitz-Hermstein, M., Töpfer, N., Kleessen, S., Fernie, A. R. & Nikoloski, Z. iReMet-flux: constraint-based approach for integrating relative metabolite levels into a stoichiometric metabolic models. Bioinformatics 32, i755–i762 (2016).

Schwahn, K., Küken, A., Kliebenstein, D. J., Fernie, A. R. & Nikoloski, Z. Observability of plant metabolic networks is reflected in the correlation of metabolic profiles. Plant Physiology 172, 1324–1333 (2016).

Scossa, F., Brotman, Y., de Abreu e Lima, F., Willmitzer, L., Nikoloski, Z., Tohge, T. & Fernie, A. R. Genomics-based strategies for the use of natural variation in the improvement of crop metabolism. Plant Science 242, 47–64 (2016).

Rosado-Souza, L., Scossa, F., Chaves, I. S., Kleessen, S., Salvador, L. F. D., Milagre, J. C., Finger, F., Bhering, L. L., Sulpice, R., Araujo, W. L., Nikoloski, Z., Fernie, A. R. & Nunes-Nesi, A. Exploring natural variation of photosynthetic, primary metabolism and growth parameters in a large panel of Capsicum chinense accessions. Planta 242, 677–691 (2015).

Cui, X., Lv, Y., Chen, M., Nikoloski, Z., Twell, D. & Zhang, D. Young Genes out of the Male: An Insight from Evolutionary Age Analysis of the Pollen Transcriptome. Molecular Plant 8, 935–945 (2015).

Kleessen, S., Irgang, S., Klie, S., Giavalisco, P. & Nikoloski, Z. Integration of transcriptomics and metabolomics data specifies the metabolic response of Chlamydomonas to rapamycin treatment. The Plant Journal 81, 822–835 (2015).

Alseekh, S., Tohge, T., Wendenburg, R., Scossa, F., Omranian, N., Li, J., Kleessen, S., Giavalisco, P., Pleban, T., Mueller-Roeber, B., Zamir, D., Nikoloski, Z. & Fernie, A. R. Identification and mode of inheritance of quantitative trait Loci for secondary metabolite abundance in tomato. The Plant Cell 27, 485–512 (2015).