| YEAR |
TITLE |
| 2023 |
Integrating gene expression data into a genome-scale metabolic model to identify reprogramming during adaptive evolution
S Yazdanpanah, E Motamedian, SA Shojaosadati
Plos one 18 (10), e0292433
|
| 2023 |
Regulatory-systemic approach in Aspergillus niger for bioleaching improvement by controlling precipitation
A Naderi, F Vakilchap, E Motamedian, SM Mousavi
Applied Microbiology and Biotechnology, 1-16
|
| 2023 |
Developing a metabolic model‐based fed‐batch feeding strategy for Pichia
pastoris fermentation through fine‐tuning of the methanol utilization
pathway
MA Boojari, F Rajabi Ghaledari, E Motamedian, M Soleimani, ...
Microbial Biotechnology
|
| 2023 |
Improvement of Lutein Production in Auxenochlorella protothecoides
Using Its Genome-Scale Metabolic Model and a System-Oriented Approach
M Mekanik, R Fotovat, E Motamedian, V Jafarian
Applied Biochemistry and Biotechnology 195 (2), 889-904
|
| 2023 |
Investigating ethanol production using the Zymomonas mobilis crude
extract
A Aminian, E Motamedian
Scientific Reports 13 (1), 1165
|
| 2023 |
OptEnvelope: a target point guided method for growth-coupled production
using knockouts
E Motamedian, K Berzins, R Muiznieks, E Stalidzans
Biorxiv, 2023.03. 10.532079
|
| 2022 |
Cellular Genome-Scale Metabolic Modeling Identifies New Potential Drug
Targets Against Hepatocellular Carcinoma
O Jamialahmadi, E Salehabadi, S Hashemi-Najafabadi, E Motamedian,
...
Omics: a journal of integrative biology 26 (12), 671-682
|
| 2022 |
Investigating ethanol production using the Zymomonas mobilis crude extract
A Aminian, E Motamedian
|
| 2022 |
Improvement of Lutein Production in Auxenochlorella protothecoides Using
Its Genome-Scale Metabolic Model and a System-Oriented Approach
M Mekanik, R Fotovat, E Motamedian, V Jafarian
Applied Biochemistry and Biotechnology, 1-16
|
| 2022 |
Identifying bottleneck reactions and developing a systemic fed-batch
feeding strategy of Pichia pastoris through fine-tuning of methanol
utilization pathway
MA Boojari, FR Ghaledari, E Motamedian, M Soleimani, SA Shojaosadati
Authorea Preprints
|
| 2022 |
Investigating role of abiotic side and finding optimum abiotic condition
for improving gas biodesulfurization using Thioalkalivibrio versutus
R Peighami, E Motamedian, B Rasekh, F Yazdian
Scientific Reports 12 (1), 1-14
|
| 2022 |
Reconstruction of a generic genome-scale metabolic network for chicken:
Investigating network connectivity and finding potential biomarkers
E Salehabadi, E Motamedian, SA Shojaosadati
PloS one 17 (3), e0254270
|
| 2022 |
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 |
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 |
MRI: an algorithm to identify metabolic reprogramming during adaptive
laboratory evolution using gene expression data
S Yazdanpanah, E Motamedian, SA Shojaosadati
bioRxiv, 2022.10. 17.512466
|
| 2021 |
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 |
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 |
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), 1-12
|
| 2021 |
Reconstruction and validation of genome-scale metabolic model of L.
lactis subsp. lactis NCDO 2118 and in silico analysis for succinate
and Gamma-aminobutyric acid overproduction
O Ardalani, E Motamedian, J Hamedi
Biochemical Engineering Journal 170, 107967
|
| 2020 |
A systematic strategy using a reconstructed genome-scale metabolic network
for pathogen Streptococcuspneumoniae D39 to find novel
potential drug targets
N Pedram, H Rashedi, E Motamedian
Pathogens and Disease 78 (6), ftaa051
|
| 2020 |
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 |
ACBM: an integrated agent and constraint based modeling framework for
simulation of microbial communities
E Karimian, E Motamedian
Scientific reports 10 (1), 1-10
|
| 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
|
| 2019 |
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 |
Applying a system-oriented method for culture medium design to improve
bio-ethanol production by synechocystis
MA Babazadegan, E Motamedian
Journal of Applied Research of Chemical-Polymer Engineering 3 (2),
55-67
|
| 2019 |
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 |
Reconstruction and analysis of the genome-scale metabolic network of
Streptococcus bovis B315 involved in lactic acid production in the rumen
S Jelokhani-niaraki, M Tahmoorespur, Z Minuchehr, E Motamedian,
...
Animal Sciences Journal 31 (121), 103-116
|
| 2019 |
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
|
| 2018 |
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
|
| 2017 |
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 |
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
|
| 2016 |
Reconstruction and topology analysis of metabolic network involved in
Bos Taurus milk production
S Ghorbani, M Tahmoorespur, A Masoudi-nejad, MR Nasiri, Y Asgari,
...
Animal Sciences Journal 29 (110), 167-180
|
| 2016 |
Correction: BiKEGG: a COBRA toolbox extension for bridging the BiGG
and KEGG databases
O Jamialahmadi, E Motamedian, S Hashemi-Najafabadi
Molecular BioSystems 12 (12), 3743-3743
|
| 2016 |
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 |
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
|
| 2015 |
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 |
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 |
A new algorithm to find all alternate optimal flux distributions of
a metabolic network
E Motamedian
Computers & Chemical Engineering 73, 64-69
|
| 2011 |
Flux distribution in Bacillus subtilis: inspection on plurality of optimal
solutions
E Motamedian, F Naeimpoor
Iranian Journal of Biotechnology 9 (4), 260-266
|
| 2011 |
Prediction of proton exchange and bacterial growth on various substrates
using constraint-based modeling approach
E Motamedian, F Naeimpoor
Biotechnology and Bioprocess Engineering 16 (5), 875-884
|
| 2007 |
Modeling two-phase flow in horizontal pipe bends: New calculations of
pressure loss and predictions of flow pattern in bends
E MOTAMEDIAN, N KASIRI, A GHAEMI
Hydrocarbon processing (International ed.) 86 (9)
|
