| MEMOTE for standardized genome-scale metabolic model testing C Lieven, ME Beber, BG Olivier, FT Bergmann, M Ataman, P Babaei, ... Nature biotechnology 38 (3), 272-276, 2020 | 410 | 2020 |
| Sustainability assessment of succinic acid production technologies from biomass using metabolic engineering M Morales, M Ataman, S Badr, S Linster, I Kourlimpinis, ... Energy & Environmental Science 9 (9), 2794-2805, 2016 | 128 | 2016 |
| Heading in the right direction: thermodynamics-based network analysis and pathway engineering M Ataman, V Hatzimanikatis Current opinion in biotechnology 36, 176-182, 2015 | 104 | 2015 |
| pyTFA and matTFA: a Python package and a Matlab toolbox for Thermodynamics-based Flux Analysis P Salvy, G Fengos, M Ataman, T Pathier, KC Soh, V Hatzimanikatis Bioinformatics 35 (1), 167-169, 2019 | 101 | 2019 |
| redGEM: Systematic reduction and analysis of genome-scale metabolic reconstructions for development of consistent core metabolic models M Ataman, DF Hernandez Gardiol, G Fengos, V Hatzimanikatis PLoS computational biology 13 (7), e1005444, 2017 | 80 | 2017 |
| Bioenergetics-based modeling of Plasmodium falciparum metabolism reveals its essential genes, nutritional requirements, and thermodynamic bottlenecks A Chiappino-Pepe, S Tymoshenko, M Ataman, D Soldati-Favre, ... PLoS computational biology 13 (3), e1005397, 2017 | 64 | 2017 |
| Memote: A community driven effort towards a standardized genome-scale metabolic model test suite C Lieven, ME Beber, BG Olivier, FT Bergmann, M Ataman, P Babaei, ... BioRxiv, 350991, 2018 | 60 | 2018 |
| Modeling metabolic networks of individual bacterial agents in heterogeneous and dynamic soil habitats (IndiMeSH) B Borer, M Ataman, V Hatzimanikatis, D Or PLoS computational biology 15 (6), e1007127, 2019 | 54 | 2019 |
| lumpGEM: Systematic generation of subnetworks and elementally balanced lumped reactions for the biosynthesis of target metabolites M Ataman, V Hatzimanikatis PLoS computational biology 13 (7), e1005513, 2017 | 51 | 2017 |
| The SIB Swiss Institute of Bioinformatics’ resources: focus on curated databases SIB Swiss Institute of Bioinformatics Members Nucleic acids research 44 (D1), D27-D37, 2016 | 51 | 2016 |
| Kinetic models of metabolism that consider alternative steady-state solutions of intracellular fluxes and concentrations T Hameri, G Fengos, M Ataman, L Miskovic, V Hatzimanikatis Metabolic engineering 52, 29-41, 2019 | 43 | 2019 |
| Discovery and evaluation of biosynthetic pathways for the production of five methyl ethyl ketone precursors M Tokic, N Hadadi, M Ataman, D Neves, BE Ebert, LM Blank, L Miskovic, ... ACS synthetic biology 7 (8), 1858-1873, 2018 | 43 | 2018 |
| Analysis of human metabolism by reducing the complexity of the genome-scale models using redHUMAN M Masid, M Ataman, V Hatzimanikatis Nature communications 11 (1), 2821, 2020 | 42 | 2020 |
| Exploring biochemical pathways for mono-ethylene glycol (MEG) synthesis from synthesis gas MA Islam, N Hadadi, M Ataman, V Hatzimanikatis, G Stephanopoulos Metabolic engineering 41, 173-181, 2017 | 37 | 2017 |
| CFIm-mediated alternative polyadenylation remodels cellular signaling and miRNA biogenesis S Ghosh, M Ataman, M Bak, A Börsch, A Schmidt, K Buczak, G Martin, ... Nucleic acids research 50 (6), 3096-3114, 2022 | 25 | 2022 |
| Molecular thermodynamics of metabolism: quantum thermochemical calculations for key metabolites N Hadadi, M Ataman, V Hatzimanikatis, C Panayiotou Physical Chemistry Chemical Physics 17 (16), 10438-10453, 2015 | 23 | 2015 |
| Integration of metabolic, regulatory and signaling networks towards analysis of perturbation and dynamic responses A Chiappino-Pepe, V Pandey, M Ataman, V Hatzimanikatis Current Opinion in Systems Biology 2, 59-66, 2017 | 20 | 2017 |
| Molecular thermodynamics of metabolism: hydration quantities and the equation-of-state approach C Panayiotou, S Mastrogeorgopoulos, M Ataman, N Hadadi, ... Physical Chemistry Chemical Physics 18 (47), 32570-32592, 2016 | 19 | 2016 |
| Constraint-based metabolic control analysis for rational strain engineering S Tsouka, M Ataman, T Hameri, L Miskovic, V Hatzimanikatis Metabolic Engineering 66, 191-203, 2021 | 16 | 2021 |
| A workflow for annotating the knowledge gaps in metabolic reconstructions using known and hypothetical reactions E Vayena, A Chiappino-Pepe, H MohammadiPeyhani, Y Francioli, ... Proceedings of the National Academy of Sciences 119 (46), e2211197119, 2022 | 15 | 2022 |
Vassily HatzimanikatisAssociate Professor, EPFLVerified email at epfl.ch
