Recent Publications

Recent Journal Papers

M. Tokic; N. Hadadi; M. Ataman; D. Neves; B. E. Ebert et al. : Discovery and Evaluation of Biosynthetic Pathways for the Production of Five Methyl Ethyl Ketone Precursors; ACS Synthetic Biology. 2018-07-18. DOI : 10.1021/acssynbio.8b00049.
P. Salvy; G. Fengos; M. Ataman; T. Pathier; K. C. Soh et al. : pyTFA and matTFA: a Python package and a Matlab toolbox for Thermodynamics-based Flux Analysis; Bioinformatics. 2018-07-02. DOI : 10.1093/bioinformatics/bty499.
S. Bulut; S. Siankevich; A. P. van Muyden; D. T. L. Alexander; G. Savoglidis et al. : Efficient cleavage of aryl ether C–O linkages by Rh–Ni and Ru–Ni nanoscale catalysts operating in water; Chemical Science. 2018. DOI : 10.1039/C8SC00742J.
L. C. Bryan; D. R. Weilandt; A. L. Bachmann; S. Kilic; C. C. Lechner et al. : Single-molecule kinetic analysis of HP1-chromatin binding reveals a dynamic network of histone modification and DNA interactions; Nucleic Acids Research. 2017. DOI : 10.1093/nar/gkx697.
M. Ataman; D. F. H. Gardiol; G. Fengos; V. Hatzimanikatis : redGEM: Systematic reduction and analysis of genome-scale metabolic reconstructions for development of consistent core metabolic models; Plos Computational Biology. 2017. DOI : 10.1371/journal.pcbi.1005444.

Recent Conference Papers, Poster and Talks

J. M. Hafner; B. Lopes; N. Hadadi : In silico tracing of the fate of single carbon atoms in different physiological states of E. coli ; Metabolic Engineering 12, Munich, Germany, June 24-28, 2018.
M. Tokic; L. Miskovic; V. Hatzimanikatis : Computational analysis of Pseudomonas Putida metabolism Using Large-scale Kinetic Models ; Metabolic Engineering 12, Munich, Germany, June 24-28, 2018.
H. Mohammadi Peyhani : Evaluating the similarity of biochemical reactions and its uses for mapping novel and orphan reactions to protein sequences ; Metabolic Engineering 12, Munich, Germany, June 24-28, 2018.
A. Chiappino Pepe; E. Bushell; J. C. Rayner; O. Billker; V. Hatzimanikatis : Toward the identification of cellular mechanisms behind the lethal phenotypes in malaria parasites blood stages with PlasmoGEM and metabolic modeling ; Biochemical and Molecular Engineering XX, Newport Beach, CA, USA, July 16-20, 2017.
A. Chiappino Pepe; E. Bushell; R. Limenitakis; J. C. Rayner; V. Heussler et al. : Identifying and targeting key cellular mechanisms for proliferation in Plasmodium parasites: a combined experimental and computational strategy ; 3rd International SystemsX.ch Conference on Systems Biology, ETH Zurich, Zurich, Switzerland, September 4-7, 2017.