| TRFBA: an algorithm to integrate genome-scale metabolic and transcriptional regulatory networks with incorporation of expression data E Motamedian, M Mohammadi, SA Shojaosadati, M Heydari Bioinformatics 33 (7), 1057-1063, 2017 | 60 | 2017 |
| Reconstruction of a charge balanced genome-scale metabolic model to study the energy-uncoupled growth of Zymomonas mobilis ZM1 E Motamedian, M Saeidi, SA Shojaosadati Molecular BioSystems 12 (4), 1241-1249, 2016 | 30 | 2016 |
| A benchmark-driven approach to reconstruct metabolic networks for studying cancer metabolism O Jamialahmadi, S Hashemi-Najafabadi, E Motamedian, S Romeo, ... PLoS computational biology 15 (4), e1006936, 2019 | 25 | 2019 |
| Investigation on metabolism of cisplatin resistant ovarian cancer using a genome scale metabolic model and microarray data E Motamedian, G Ghavami, S Sardari Iranian journal of basic medical sciences 18 (3), 267, 2015 | 23 | 2015 |
| ACBM: an integrated agent and constraint based modeling framework for simulation of microbial communities E Karimian, E Motamedian Scientific Reports 10 (1), 8695, 2020 | 21 | 2020 |
| Reconstruction of a regulated two-cell metabolic model to study biohydrogen production in a diazotrophic cyanobacterium Anabaena variabilis ATCC 29413 A Malek Shahkouhi, E Motamedian PloS one 15 (1), e0227977, 2020 | 21 | 2020 |
| Development and in silico analysis of a new nitrogen-limited feeding strategy for fed-batch cultures of Pichia pastoris based on a simple pH-control system ZA Irani, A Maghsoudi, SA Shojaosadati, E Motamedian Biochemical engineering journal 98, 1-9, 2015 | 19 | 2015 |
| LAMOS: A linear algorithm to identify the origin of multiple optimal flux distributions in metabolic networks E Motamedian, F Naeimpoor Computers & Chemical Engineering 117, 372-377, 2018 | 13 | 2018 |
| Reconstruction, verification and in-silico analysis of a genome-scale metabolic model of bacterial cellulose producing Komagataeibacter xylinus M Rezazadeh, V Babaeipour, E Motamedian Bioprocess and biosystems engineering 43 (6), 1017-1026, 2020 | 12 | 2020 |
| Proliferation inhibition of cisplatin‐resistant ovarian cancer cells using drugs screened by integrating a metabolic model and transcriptomic data E Motamedian, E Taheri, F Bagheri Cell proliferation 50 (6), e12370, 2017 | 12 | 2017 |
| BiKEGG: a COBRA toolbox extension for bridging the BiGG and KEGG databases O Jamialahmadi, E Motamedian, S Hashemi-Najafabadi Molecular BioSystems 12 (11), 3459-3466, 2016 | 12 | 2016 |
| A system-oriented strategy to enhance electron production of Synechocystis sp. PCC6803 in bio-photovoltaic devices: experimental and modeling insights H Firoozabadi, MM Mardanpour, E Motamedian Scientific Reports 11 (1), 12294, 2021 | 11 | 2021 |
| Reconstruction of a genome-scale metabolic model for Auxenochlorella protothecoides to study hydrogen production under anaerobiosis using multiple optimal solutions M Mekanik, E Motamedian, R Fotovat, V Jafarian International Journal of Hydrogen Energy 44 (5), 2580-2591, 2019 | 11 | 2019 |
| Investigating the ability of sulfur oxidizing strains in biodesulfurisation of sulfide-containing streams, screening the most capable strain and determining the optimum … R Peighami, B Rasekh, E Motamedian, F Yazdian, H Khodaverdi Fuel 309, 121985, 2022 | 10 | 2022 |
| An integrated modular framework for modeling the effect of ammonium on the sialylation process of monoclonal antibodies produced by CHO cells ISP Savizi, E Motamedian, N E. Lewis, I Jimenez del Val, SA Shojaosadati Biotechnology Journal 16 (8), 2100019, 2021 | 9 | 2021 |
| Development of a regulatory defined medium using a system-oriented strategy to reduce the intracellular constraints E Motamedian, M Sarmadi, E Derakhshan Process biochemistry 87, 10-16, 2019 | 8 | 2019 |
| Valine feeding reduces ammonia production through rearrangement of metabolic fluxes in central carbon metabolism of CHO cells ISP Savizi, N Maghsoudi, E Motamedian, NE Lewis, SA Shojaosadati Applied Microbiology and Biotechnology 106 (3), 1113-1126, 2022 | 6 | 2022 |
| Improving ethanol production by studying the effect of pH using a modified metabolic model and a systemic approach S Ghaffarinasab, E Motamedian Biotechnology and Bioengineering 118 (8), 2934-2946, 2021 | 5 | 2021 |
| Prediction of proton exchange and bacterial growth on various substrates using constraint-based modeling approach E Motamedian, F Naeimpoor Biotechnology and bioprocess engineering 16, 875-884, 2011 | 5 | 2011 |
| OptEnvelope: A target point guided method for growth-coupled production using knockouts E Motamedian, K Berzins, R Muiznieks, E Stalidzans Plos one 18 (11), e0294313, 2023 | 4 | 2023 |
