- Written by Dimitar Kirkovski
Bioinformatics and Mathematical Modeling
Bioinformatics and more generally mathematical modelling represent key activities in genomics and systems biology-oriented research and are key to all experimental departments in the CPSBB. This department will provide support to the experimental departments at CPSBB in all major aspects related to the analysis of “omics” data sets (including e.g. next generation sequencing data from e.g. RNA-seq, ChIP-seq or whole-genome sequencing; primary and secondary metabolite profile data, and others).
|Head of Department:|
|Prof. Dr. Zoran Nikoloski|
|Dr. Rafe Lyallfirstname.lastname@example.org|
Correa S.M., Alseekh S., Atehortúa L., Brotman Y., Ríos-Estepa R., Fernie A.R., Nikoloski Z. (2020) Model-assisted identification of metabolic engineering strategies for Jatropha curcas lipid pathways. The Plant Journal. 104(1): 76-95. (IF 6.141)
Correa S. M.; Fernie A.R.; Nikoloski Z.; Brotman Y. (2020) Towards model-driven characterization and manipulation of plant lipid metabolism. Progress in Lipid Research. 80: 101051. (IF 15.083)
Lyall R., Gechev T. (2020) Multi-omics insights into the evolution of angiosperm resurrection plants. Annual Plant Reviews Online. 3(1): 77-110.
Lyall R., Nikoloski Z., Gechev, T. (2020) Comparative analysis of ROS network genes in extremophile eukaryotes. International Journal of Molecular Sciences. 21: 9131. (IF 4.556)
Omidbakhshfard M.A., Sujeeth N., Gupta S., Omranian N., Guinan K.J., Brotman Y., Nikoloski Z., Fernie A., Mueller-Roeber B., Gechev T. (2020) A biostimulant obtained from the seaweed Ascophyllum nodosum protects Arabidopsis thaliana from severe oxidative stress. International Journal of Molecular Sciences. 21(2): 1–26. (IF 4.556)
Tong H., Küken A., Nikoloski Z. (2020) Integrating molecular markers into metabolic models improves genomic selection for Arabidopsis growth. Nature Communications 11: 2410 (IF 12.121)
Tong H.; Nikoloski Z. (2020) Machine learning approaches for crop improvement: leveraging phenotypic and genotypic big data. Journal of Plant Physiology (accepted). (IF 3.121)
Pandey P.K., Yu J., Omranian N., Alseekh S., Vaid N, Fernie A.R., Nikoloski Z., Laitinen R.A.E. (2019) Plasticity in metabolism underpins local responses to nitrogen in Arabidopsis thaliana populations. Plant Direct. 3(11): e00186. (IF 1.725)
Nunes-Nesi A., Alseekh S., de Oliveira Silva F., Omranian N., Lichtenstein G., Mirnezhad M., Gonzalez R., Sabio Y Garcia J., Conte M., Leiss K., Klinkhamer P., Nikoloski Z., Carrari F., Fernie A. (2019) Identification and characterization of metabolite quantitative trait loci in tomato leaves and comparison with those reported for fruits and seeds. Metabolomics. 15(4): 46. (IF 3.167)