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Project Partners

Since Sept. 2009

 Dr. Zoran Nikoloski

(specification coming soon)

University of Potsdam, Institute of Biochemistry and Biology/Genetics
c/o Max Planck Institute of Molecular Plant Physiology
Am Muehlenberg 1
14474 Potsdam-Golm
Phone: + 49 (331) 567 8630
Fax: + 49 (331) 567 8250
nikoloski@mpimp-golm.mpg.de

Precursor: Dr. Oliver Ebenhöh

Institute for Complex Systems and Mathematical Biology
University of Aberdeen
King's College
Aberdeen AB24 3UE

ebenhoeh@abdn.ac.uk

Core Competency:

Analysis and interpretation of complex biological data.

Methods include metabolic profiling, integrated analysis of transcripts and metabolites, flux analysis.

Contribution to Work Programme:

General bioinformatics and computational methods

Contribution to other work programmes:

Application of the developed methods to the data generated by the experimental groups.

GoFORSYS Publications of the Group:

Christian, N., T. Handorf, et al. (2007). Metabolic Synergy: Increasing Biosynthetic Capabilities By Network Cooperation. 7th Annual International Workshop on Bioinformatics and Systems Biology, Tokyo, JAPAN, Imperial College Press.

Basler, G., Z. Nikoloski, et al. (2008). "Biosynthetic potentials from species-specific metabolic networks." Genome Informatics 20: 135–148.

Handorf, T., N. Christian, et al. (2008). "An environmental perspective on metabolism." Journal of Theoretical Biology 252(3): 530-7.

Kartal, Ö. and O. Ebenhoeh (2008). The glucan water dikinase – a kinetic model to understand the initial step in starch mobilization in plant leaves. From Computational Biophysics to Systems Biology. 40: 245-248.

Kruse, K. and O. Ebenhoeh (2008). "Comparing flux balance analysis to network expansion: Producibility, sustainability and the scope of compounds." Genome Informatics 20: 91–101.

Matthaus, F., C. Salazar, et al. (2008). "Biosynthetic potentials of metabolites and their hierarchical organization." PLoS Computational Biology 4(4): e1000049.

May, P., S. Wienkoop, et al. (2008). "Metabolomics- and proteomics-assisted genome annotation and analysis of the draft metabolic network of Chlamydomonas reinhardtii." Genetics 179(1): 157-166.

Nikoloski, Z., S. Grimbs, et al. (2008). Hardness and approximability of the inverse scope problem. Algorithms in Bioinformatics. 8th International Workshop, WABI 2008, Karlsruhe, Germany, Springer-Verlag.

Numata, J., O. Ebenhoeh, et al. (2008). "Measuring correlations in metabolomic networks with mutual information." Genome Informatics 20: 112-122.

Ebenhoh, O. and T. Handorf (2009). "Functional classification of genome-scale metabolic networks." EURASIP Journal on Bioinformatics & Systems Biology: 570456.