| Year |
Citation |
Score |
| 2022 |
Manchel A, Mahadevan R, Bataller R, Hoek JB, Vadigepalli R. Genome-Scale Metabolic Modeling Reveals Sequential Dysregulation of Glutathione Metabolism in Livers from Patients with Alcoholic Hepatitis. Metabolites. 12. PMID 36557195 DOI: 10.3390/metabo12121157 |
0.614 |
|
| 2022 |
Haddadi K, Ahmed Barghout R, Mahadevan R. KinMod database: a tool for investigating metabolic regulation. Database : the Journal of Biological Databases and Curation. 2022. PMID 36222201 DOI: 10.1093/database/baac081 |
0.328 |
|
| 2021 |
Euler C, Mahadevan R. On the Design Principles of Metabolic Flux Sensing. Biophysical Journal. PMID 34951981 DOI: 10.1016/j.bpj.2021.12.022 |
0.304 |
|
| 2020 |
Raj K, Venayak N, Mahadevan R. Novel two-stage processes for optimal chemical production in microbes. Metabolic Engineering. PMID 32827703 DOI: 10.1016/j.ymben.2020.08.006 |
0.34 |
|
| 2020 |
Raj K, Venayak N, Mahadevan R. Novel two-stage processes for optimal chemical production in microbes. Metabolic Engineering. PMID 32827703 DOI: 10.1016/j.ymben.2020.08.006 |
0.34 |
|
| 2020 |
Correia K, Mahadevan R. Pan-Genome-Scale Network Reconstruction: Harnessing Phylogenomics Increases the Quantity and Quality of Metabolic Models. Biotechnology Journal. e1900519. PMID 32744423 DOI: 10.1002/Biot.201900519 |
0.35 |
|
| 2020 |
Al-Fahad AJ, Al-Fageeh MB, Kharbatia NM, Sioud S, Mahadevan R. Metabolically engineered recombinant for the production of 2-Deoxy--inosose (2-DOI). Metabolic Engineering Communications. 11: e00134. PMID 32670790 DOI: 10.1016/J.Mec.2020.E00134 |
0.457 |
|
| 2020 |
Choudhary R, Mahadevan R. Toward a systematic design of smart probiotics. Current Opinion in Biotechnology. 64: 199-209. PMID 32603961 DOI: 10.1016/J.Copbio.2020.05.003 |
0.387 |
|
| 2020 |
Liu Y, Chen J, Crisante D, Jaramillo Lopez JM, Mahadevan R. Dynamic Cell Programming with Quorum Sensing-Controlled CRISPRi Circuit. Acs Synthetic Biology. 9: 1284-1291. PMID 32485106 DOI: 10.1021/Acssynbio.0C00148 |
0.335 |
|
| 2020 |
Lieven C, Beber ME, Olivier BG, Bergmann FT, Ataman M, Babaei P, Bartell JA, Blank LM, Chauhan S, Correia K, Diener C, Dräger A, Ebert BE, Edirisinghe JN, Faria JP, ... ... Mahadevan R, et al. Publisher Correction: MEMOTE for standardized genome-scale metabolic model testing. Nature Biotechnology. 38: 504. PMID 32265554 DOI: 10.1038/S41587-020-0477-4 |
0.348 |
|
| 2020 |
Lieven C, Beber ME, Olivier BG, Bergmann FT, Ataman M, Babaei P, Bartell JA, Blank LM, Chauhan S, Correia K, Diener C, Dräger A, Ebert BE, Edirisinghe JN, Faria JP, ... ... Mahadevan R, et al. MEMOTE for standardized genome-scale metabolic model testing. Nature Biotechnology. PMID 32123384 DOI: 10.1038/S41587-020-0446-Y |
0.359 |
|
| 2019 |
Kim T, Stogios PJ, Khusnutdinova AN, Nemr K, Skarina T, Flick R, Joo JC, Mahadevan R, Savchenko A, Yakunin AF. Rational engineering of 2-deoxyribose-5-phosphate aldolases for the biosynthesis of ()-1,3-butanediol. The Journal of Biological Chemistry. PMID 31806708 DOI: 10.1074/Jbc.Ra119.011363 |
0.678 |
|
| 2019 |
Srinivasan S, Cluett WR, Mahadevan R. A scalable method for parameter identification in kinetic models of metabolism using steady state data. Bioinformatics (Oxford, England). PMID 31197317 DOI: 10.1093/Bioinformatics/Btz445 |
0.346 |
|
| 2019 |
Venayak N, Raj K, Jaydeep R, Mahadevan R. Correction to An Optimized Bistable Metabolic Switch to Decouple Phenotypic States during Anaerobic Fermentation. Acs Synthetic Biology. PMID 31181896 DOI: 10.1021/Acssynbio.9B00182 |
0.392 |
|
| 2019 |
Venayak N, Raj K, Mahadevan R. Impact framework: A python package for writing data analysis workflows to interpret microbial physiology. Metabolic Engineering Communications. 9: e00089. PMID 31011536 DOI: 10.1016/J.Mec.2019.E00089 |
0.383 |
|
| 2019 |
Biz A, Proulx S, Xu Z, Siddartha K, Indrayanti AM, Mahadevan R. Systems biology based metabolic engineering for non-natural chemicals. Biotechnology Advances. PMID 30953683 DOI: 10.1016/J.Biotechadv.2019.04.001 |
0.496 |
|
| 2019 |
Wang PH, Correia K, Ho HC, Venayak N, Nemr K, Flick R, Mahadevan R, Edwards EA. An interspecies malate-pyruvate shuttle reconciles redox imbalance in an anaerobic microbial community. The Isme Journal. PMID 30607026 DOI: 10.1038/S41396-018-0333-4 |
0.748 |
|
| 2019 |
Kadam K, Euler CK, Mahadevan R. Evaluating the performance of a post-translational dynamic metabolic control system Ifac-Papersonline. 52: 225-230. DOI: 10.1016/J.Ifacol.2019.12.262 |
0.448 |
|
| 2018 |
Venayak N, von Kamp A, Klamt S, Mahadevan R. MoVE identifies metabolic valves to switch between phenotypic states. Nature Communications. 9: 5332. PMID 30552335 DOI: 10.1038/S41467-018-07719-4 |
0.473 |
|
| 2018 |
Venayak N, Raj K, Jaydeep R, Mahadevan R. An Optimized Bistable Metabolic Switch To Decouple Phenotypic States during Anaerobic Fermentation. Acs Synthetic Biology. PMID 30376634 DOI: 10.1021/Acssynbio.8B00284 |
0.453 |
|
| 2018 |
Nemr K, Müller JEN, Joo JC, Gawand P, Choudhary R, Mendonca B, Lu S, Yu X, Yakunin AF, Mahadevan R. Engineering a short, aldolase-based pathway for (R)-1,3-butanediol production in Escherichia coli. Metabolic Engineering. PMID 29753069 DOI: 10.1016/J.Ymben.2018.04.013 |
0.778 |
|
| 2018 |
Wang PH, Khusnutdinova AN, Luo F, Xiao J, Nemr K, Flick R, Brown G, Mahadevan R, Edwards EA, Yakunin AF. Biosynthesis and Activity of Prenylated FMN Cofactors. Cell Chemical Biology. PMID 29551348 DOI: 10.1016/J.Chembiol.2018.02.007 |
0.689 |
|
| 2018 |
Xu Z, Mahadevan R. Efficient Biochemical Pathway Prediction Using Simulated Annealing Ifac-Papersonline. 51: 56-57. DOI: 10.1016/J.Ifacol.2018.09.041 |
0.337 |
|
| 2017 |
Srinivasan S, Cluett WR, Mahadevan R. Model-based Design of Bistable Cell Factories for Metabolic Engineering. Bioinformatics (Oxford, England). PMID 29220508 DOI: 10.1093/Bioinformatics/Btx769 |
0.463 |
|
| 2017 |
Klamt S, Mahadevan R, Hädicke O. When do two-stage processes outperform one-stage processes? Biotechnology Journal. PMID 29131522 DOI: 10.1002/Biot.201700539 |
0.368 |
|
| 2017 |
Partow S, Hyland PB, Mahadevan R. Synthetic rescue couples NADPH generation to metabolite overproduction in Saccharomyces cerevisiae. Metabolic Engineering. PMID 28803913 DOI: 10.1016/J.Ymben.2017.08.004 |
0.523 |
|
| 2017 |
Joo JC, Khusnutdinova AN, Flick R, Kim T, Bornscheuer UT, Yakunin AF, Mahadevan R. Alkene hydrogenation activity of enoate reductases for an environmentally benign biosynthesis of adipic acid. Chemical Science. 8: 1406-1413. PMID 28616142 DOI: 10.1039/C6Sc02842J |
0.626 |
|
| 2017 |
Pandit AV, Srinivasan S, Mahadevan R. Redesigning metabolism based on orthogonality principles. Nature Communications. 8: 15188. PMID 28555623 DOI: 10.1038/Ncomms15188 |
0.483 |
|
| 2017 |
Klamt S, Regensburger G, Gerstl MP, Jungreuthmayer C, Schuster S, Mahadevan R, Zanghellini J, Müller S. From elementary flux modes to elementary flux vectors: Metabolic pathway analysis with arbitrary linear flux constraints. Plos Computational Biology. 13: e1005409. PMID 28406903 DOI: 10.1371/Journal.Pcbi.1005409 |
0.425 |
|
| 2017 |
Kim T, Flick R, Brunzelle J, Singer A, Evdokimova E, Brown G, Joo JC, Minasov GA, Anderson WF, Mahadevan R, Savchenko A, Yakunin AF. Structural and biochemical studies of novel aldo-keto reductases for the biocatalytic conversion of 3-hydroxybutanal to 1,3-butanediol. Applied and Environmental Microbiology. PMID 28130301 DOI: 10.1128/Aem.03172-16 |
0.652 |
|
| 2016 |
Wang PH, Tang S, Nemr K, Flick R, Yan J, Mahadevan R, F Yakunin A, Löffler FE, Edwards EA. Refined experimental annotation reveals conserved corrinoid autotrophy in chloroform-respiring Dehalobacter isolates. The Isme Journal. PMID 27898054 DOI: 10.1038/Ismej.2016.158 |
0.715 |
|
| 2016 |
Euler CK, Mahadevan R. Protein-Level Control of Metabolism: Design Principles and Prospects from a Representative System Ifac-Papersonline. 49: 165-170. DOI: 10.1016/J.Ifacol.2016.12.120 |
0.472 |
|
| 2016 |
Toroghi MK, Cluett WR, Mahadevan R. A Multi-Scale Model of the Whole Human Body based on Dynamic Parsimonious Flux Balance Analysis Ifac-Papersonline. 49: 937-942. DOI: 10.1016/J.Ifacol.2016.07.319 |
0.398 |
|
| 2015 |
Rodenhizer D, Gaude E, Cojocari D, Mahadevan R, Frezza C, Wouters BG, McGuigan AP. A three-dimensional engineered tumour for spatial snapshot analysis of cell metabolism and phenotype in hypoxic gradients. Nature Materials. PMID 26595121 DOI: 10.1038/Nmat4482 |
0.378 |
|
| 2015 |
Islam MA, Tchigvintsev A, Yim V, Savchenko A, Yakunin AF, Mahadevan R, Edwards EA. Experimental validation of in silico model-predicted isocitrate dehydrogenase and phosphomannose isomerase from Dehalococcoides mccartyi. Microbial Biotechnology. PMID 26374290 DOI: 10.1111/1751-7915.12315 |
0.358 |
|
| 2015 |
Srinivasan S, Cluett WR, Mahadevan R. Constructing kinetic models of metabolism at genome-scales: A review. Biotechnology Journal. 10: 1345-59. PMID 26332243 DOI: 10.1002/Biot.201400522 |
0.378 |
|
| 2015 |
Klamt S, Mahadevan R. On the feasibility of growth-coupled product synthesis in microbial strains. Metabolic Engineering. 30: 166-78. PMID 26112955 DOI: 10.1016/J.Ymben.2015.05.006 |
0.418 |
|
| 2015 |
Gawand P, Said Abukar F, Venayak N, Partow S, Motter AE, Mahadevan R. Sub-optimal phenotypes of double-knockout mutants of Escherichia coli depend on the order of gene deletions. Integrative Biology : Quantitative Biosciences From Nano to Macro. 7: 930-9. PMID 26079398 DOI: 10.1039/C5Ib00096C |
0.791 |
|
| 2015 |
Gold ND, Gowen CM, Lussier FX, Cautha SC, Mahadevan R, Martin VJ. Metabolic engineering of a tyrosine-overproducing yeast platform using targeted metabolomics. Microbial Cell Factories. 14: 73. PMID 26016674 DOI: 10.1186/S12934-015-0252-2 |
0.472 |
|
| 2015 |
Islam MA, Zengler K, Edwards EA, Mahadevan R, Stephanopoulos G. Investigating Moorella thermoacetica metabolism with a genome-scale constraint-based metabolic model. Integrative Biology : Quantitative Biosciences From Nano to Macro. PMID 25994252 DOI: 10.1039/C5Ib00095E |
0.621 |
|
| 2015 |
Mahadevan R, von Kamp A, Klamt S. Genome-scale strain designs based on regulatory minimal cut sets. Bioinformatics (Oxford, England). PMID 25913205 DOI: 10.1093/Bioinformatics/Btv217 |
0.404 |
|
| 2015 |
Venayak N, Anesiadis N, Cluett WR, Mahadevan R. Engineering metabolism through dynamic control. Current Opinion in Biotechnology. 34: 142-52. PMID 25616051 DOI: 10.1016/J.Copbio.2014.12.022 |
0.799 |
|
| 2015 |
Yang L, Srinivasan S, Mahadevan R, Cluett WR. Characterizing metabolic pathway diversification in the context of perturbation size. Metabolic Engineering. 28: 114-22. PMID 25542850 DOI: 10.1016/J.Ymben.2014.11.013 |
0.733 |
|
| 2015 |
Mahadevan R, Doyle FJ. Nonlinear nonsquare control of a continuous bioreactor using flat outputs European Control Conference, Ecc 1999 - Conference Proceedings. 3757-3762. |
0.346 |
|
| 2014 |
Jayasinghe N, Franks A, Nevin KP, Mahadevan R. Metabolic modeling of spatial heterogeneity of biofilms in microbial fuel cells reveals substrate limitations in electrical current generation. Biotechnology Journal. 9: 1350-61. PMID 25113946 DOI: 10.1002/Biot.201400068 |
0.378 |
|
| 2014 |
Islam MA, Waller AS, Hug LA, Provart NJ, Edwards EA, Mahadevan R. New insights into Dehalococcoides mccartyi metabolism from a reconstructed metabolic network-based systems-level analysis of D. mccartyi transcriptomes. Plos One. 9: e94808. PMID 24733489 DOI: 10.1371/Journal.Pone.0094808 |
0.454 |
|
| 2014 |
Bourdakos N, Marsili E, Mahadevan R. A defined co-culture of Geobacter sulfurreducens and Escherichia coli in a membrane-less microbial fuel cell. Biotechnology and Bioengineering. 111: 709-18. PMID 24155100 DOI: 10.1002/Bit.25137 |
0.325 |
|
| 2014 |
Gawand P, Mahadevan R. Engineering Escherichia coli for D-ribose production from glucose-xylose mixtures Industrial Biotechnology. 10: 106-114. DOI: 10.1089/ind.2013.0028 |
0.779 |
|
| 2013 |
Salimi F, Mahadevan R. Characterizing metabolic interactions in a clostridial co-culture for consolidated bioprocessing. Bmc Biotechnology. 13: 95. PMID 24188120 DOI: 10.1186/1472-6750-13-95 |
0.634 |
|
| 2013 |
Gawand P, Hyland P, Ekins A, Martin VJ, Mahadevan R. Novel approach to engineer strains for simultaneous sugar utilization. Metabolic Engineering. 20: 63-72. PMID 23988492 DOI: 10.1016/J.Ymben.2013.08.003 |
0.8 |
|
| 2013 |
Anesiadis N, Kobayashi H, Cluett WR, Mahadevan R. Analysis and design of a genetic circuit for dynamic metabolic engineering. Acs Synthetic Biology. 2: 442-52. PMID 23654263 DOI: 10.1021/Sb300129J |
0.8 |
|
| 2013 |
Gawand P, Yang L, Cluett WR, Mahadevan R. Metabolic model refinement using phenotypic microarray data. Methods in Molecular Biology (Clifton, N.J.). 985: 47-59. PMID 23417798 DOI: 10.1007/978-1-62703-299-5_3 |
0.787 |
|
| 2013 |
Zhuang K, Yang L, Cluett WR, Mahadevan R. Dynamic strain scanning optimization: an efficient strain design strategy for balanced yield, titer, and productivity. DySScO strategy for strain design. Bmc Biotechnology. 13: 8. PMID 23388063 DOI: 10.1186/1472-6750-13-8 |
0.728 |
|
| 2013 |
Javaherian S, Anesiadis N, Mahadevan R, McGuigan AP. Design principles for generating robust gene expression patterns in dynamic engineered tissues. Integrative Biology : Quantitative Biosciences From Nano to Macro. 5: 578-89. PMID 23369944 DOI: 10.1039/C3Ib20274G |
0.759 |
|
| 2013 |
Zheng H, Beliavsky A, Tchigvintsev A, Brunzelle JS, Brown G, Flick R, Evdokimova E, Wawrzak Z, Mahadevan R, Anderson WF, Savchenko A, Yakunin AF. Structure and activity of the NAD(P)+-dependent succinate semialdehyde dehydrogenase YneI from Salmonella typhimurium. Proteins. 81: 1031-41. PMID 23229889 DOI: 10.1002/Prot.24227 |
0.315 |
|
| 2013 |
Cautha SC, Gowen CM, Lussier FX, Gold ND, Martin VJJ, Mahadevan R. Model-driven design of a Saccharomyces cerevisiae platform strain with improved tyrosine production capabilities Ifac Proceedings Volumes (Ifac-Papersonline). 12: 221-226. DOI: 10.3182/20131216-3-In-2044.00066 |
0.449 |
|
| 2013 |
Hyland PB, Mun SLS, Mahadevan R. Prediction of weak acid toxicity in saccharomyces cerevisiae using genome-scale metabolic models Industrial Biotechnology. 9: 229-235. DOI: 10.1089/Ind.2013.0004 |
0.412 |
|
| 2013 |
Zhao J, Scheibe TD, Mahadevan R. Model-based analysis of mixed uranium(VI) reduction by biotic and abiotic pathways during in situ bioremediation Chemical Geology. 357: 215-222. DOI: 10.1016/J.Chemgeo.2013.08.037 |
0.341 |
|
| 2013 |
Tartakovsky GD, Tartakovsky AM, Scheibe TD, Fang Y, Mahadevan R, Lovley DR. Pore-scale simulation of microbial growth using a genome-scale metabolic model: Implications for Darcy-scale reactive transport Advances in Water Resources. 59: 256-270. DOI: 10.1016/J.Advwatres.2013.05.007 |
0.343 |
|
| 2012 |
Mahadevan R, Henson MA. Genome-based Modeling and Design of Metabolic Interactions in Microbial Communities. Computational and Structural Biotechnology Journal. 3: e201210008. PMID 24688668 DOI: 10.5936/Csbj.201210008 |
0.384 |
|
| 2012 |
Khazaei T, McGuigan A, Mahadevan R. Ensemble modeling of cancer metabolism. Frontiers in Physiology. 3: 135. PMID 22623918 DOI: 10.3389/Fphys.2012.00135 |
0.422 |
|
| 2012 |
Zhuang K, Ma E, Lovley DR, Mahadevan R. The design of long-term effective uranium bioremediation strategy using a community metabolic model. Biotechnology and Bioengineering. 109: 2475-83. PMID 22510989 DOI: 10.1002/Bit.24528 |
0.337 |
|
| 2012 |
Facchini PJ, Bohlmann J, Covello PS, De Luca V, Mahadevan R, Page JE, Ro DK, Sensen CW, Storms R, Martin VJ. Synthetic biosystems for the production of high-value plant metabolites. Trends in Biotechnology. 30: 127-31. PMID 22209518 DOI: 10.1016/J.Tibtech.2011.10.001 |
0.368 |
|
| 2012 |
Barlett M, Zhuang K, Mahadevan R, Lovley D. Integrative analysis of Geobacter spp. and sulfate-reducing bacteria during uranium bioremediation Biogeosciences. 9: 1033-1040. DOI: 10.5194/Bg-9-1033-2012 |
0.322 |
|
| 2011 |
Usher J, Balderas-Hernandez V, Quon P, Gold ND, Martin VJ, Mahadevan R, Baetz K. Chemical and Synthetic Genetic Array Analysis Identifies Genes that Suppress Xylose Utilization and Fermentation in Saccharomyces cerevisiae. G3 (Bethesda, Md.). 1: 247-58. PMID 22384336 DOI: 10.1534/G3.111.000695 |
0.43 |
|
| 2011 |
Pandit AV, Mahadevan R. In silico characterization of microbial electrosynthesis for metabolic engineering of biochemicals. Microbial Cell Factories. 10: 76. PMID 21967745 DOI: 10.1186/1475-2859-10-76 |
0.45 |
|
| 2011 |
Zhuang K, Vemuri GN, Mahadevan R. Economics of membrane occupancy and respiro-fermentation. Molecular Systems Biology. 7: 500. PMID 21694717 DOI: 10.1038/Msb.2011.34 |
0.365 |
|
| 2011 |
Yang L, Cluett WR, Mahadevan R. EMILiO: a fast algorithm for genome-scale strain design. Metabolic Engineering. 13: 272-81. PMID 21414417 DOI: 10.1016/J.Ymben.2011.03.002 |
0.677 |
|
| 2011 |
Zhao J, Scheibe TD, Mahadevan R. Model-based analysis of the role of biological, hydrological and geochemical factors affecting uranium bioremediation Biotechnology and Bioengineering. 108: 1537-1548. PMID 21337330 DOI: 10.1002/Bit.23096 |
0.315 |
|
| 2011 |
Fang Y, Scheibe TD, Mahadevan R, Garg S, Long PE, Lovley DR. Direct coupling of a genome-scale microbial in silico model and a groundwater reactive transport model. Journal of Contaminant Hydrology. 122: 96-103. PMID 21172725 DOI: 10.1016/J.Jconhyd.2010.11.007 |
0.399 |
|
| 2011 |
Mahadevan R, Palsson BØ, Lovley DR. In situ to in silico and back: elucidating the physiology and ecology of Geobacter spp. using genome-scale modelling. Nature Reviews. Microbiology. 9: 39-50. PMID 21132020 DOI: 10.1038/Nrmicro2456 |
0.421 |
|
| 2011 |
Zhuang K, Izallalen M, Mouser P, Richter H, Risso C, Mahadevan R, Lovley DR. Genome-scale dynamic modeling of the competition between Rhodoferax and Geobacter in anoxic subsurface environments. The Isme Journal. 5: 305-16. PMID 20668487 DOI: 10.1038/Ismej.2010.117 |
0.346 |
|
| 2011 |
Barlett M, Zhuang K, Mahadevan R, Lovley DR. Integrative analysis of the interactions between <i>Geobacter</i> spp. and sulfate-reducing bacteria during uranium bioremediation Biogeosciences Discussions. 8: 11337-11357. DOI: 10.5194/Bgd-8-11337-2011 |
0.322 |
|
| 2011 |
Pinel D, Gawand P, Mahadevan R, Martin VJJ. 'Omics' technologies and systems biology for engineering Saccharomyces cerevisiae strains for lignocellulosic bioethanol production Biofuels. 2: 659-675. DOI: 10.4155/bfs.11.120 |
0.811 |
|
| 2011 |
Anesiadis N, Cluett WR, Mahadevan R. Model-driven design based on sensitivity analysis for a synthetic biology application Computer Aided Chemical Engineering. 29: 1446-1450. DOI: 10.1016/B978-0-444-54298-4.50068-4 |
0.8 |
|
| 2011 |
Gawand P, Mahadevan R. Higher order gene deletion mutants give insights on latent pathway activation Aiche Annual Meeting, Conference Proceedings. |
0.772 |
|
| 2011 |
Anesiadis N, Cluett WR, Kobayashi H, Fong S, Mahadevan R. Dynamic metabolic engineering for lactate production Aiche Annual Meeting, Conference Proceedings. |
0.809 |
|
| 2011 |
Anesiadis N, Cluett WR, Kobayashi H, Fong S, Mahadevan R. Dynamic metabolic engineering for lactate production Aiche Annual Meeting, Conference Proceedings. |
0.809 |
|
| 2010 |
Ahsanul Islam M, Edwards EA, Mahadevan R. Characterizing the metabolism of Dehalococcoides with a constraint-based model. Plos Computational Biology. 6. PMID 20811585 DOI: 10.1371/Journal.Pcbi.1000887 |
0.471 |
|
| 2010 |
Salimi F, Zhuang K, Mahadevan R. Genome-scale metabolic modeling of a clostridial co-culture for consolidated bioprocessing. Biotechnology Journal. 5: 726-38. PMID 20665645 DOI: 10.1002/Biot.201000159 |
0.659 |
|
| 2010 |
Garg S, Yang L, Mahadevan R. Thermodynamic analysis of regulation in metabolic networks using constraint-based modeling. Bmc Research Notes. 3: 125. PMID 20444261 DOI: 10.1186/1756-0500-3-125 |
0.718 |
|
| 2010 |
Srinivasan K, Mahadevan R. Characterization of proton production and consumption associated with microbial metabolism. Bmc Biotechnology. 10: 2. PMID 20089195 DOI: 10.1186/1472-6750-10-2 |
0.392 |
|
| 2010 |
Zhao J, Fang Y, Scheibe TD, Lovley DR, Mahadevan R. Modeling and sensitivity analysis of electron capacitance for Geobacter in sedimentary environments. Journal of Contaminant Hydrology. 112: 30-44. PMID 19892431 DOI: 10.1016/J.Jconhyd.2009.10.002 |
0.308 |
|
| 2010 |
Jayasinghe N, Mahadevan R. Metabolic Modeling of Spatial Heterogeneity of Biofilms in Microbial Fuel Cells Ifac Proceedings Volumes. 43: 215-220. DOI: 10.3182/20100707-3-Be-2012.0050 |
0.385 |
|
| 2010 |
Salimi F, Mandal R, Wishart D, Mahadevan R. Understanding clostridium acetobutylicum ATCC 824 metabolism using genome-scale thermodynamics and metabolomics-based modeling Ifac Proceedings Volumes (Ifac-Papersonline). 11: 126-131. DOI: 10.3182/20100707-3-Be-2012.0022 |
0.724 |
|
| 2010 |
Yang L, Cluett WR, Mahadevan R. Rapid design of system-wide metabolic network modifications using iterative linear programming Ifac Proceedings Volumes (Ifac-Papersonline). 9: 391-396. DOI: 10.3182/20100705-3-Be-2011.00065 |
0.728 |
|
| 2009 |
Scheibe TD, Mahadevan R, Fang Y, Garg S, Long PE, Lovley DR. Coupling a genome-scale metabolic model with a reactive transport model to describe in situ uranium bioremediation. Microbial Biotechnology. 2: 274-86. PMID 21261921 DOI: 10.1111/J.1751-7915.2009.00087.X |
0.374 |
|
| 2009 |
Risso C, Sun J, Zhuang K, Mahadevan R, DeBoy R, Ismail W, Shrivastava S, Huot H, Kothari S, Daugherty S, Bui O, Schilling CH, Lovley DR, Methé BA. Genome-scale comparison and constraint-based metabolic reconstruction of the facultative anaerobic Fe(III)-reducer Rhodoferax ferrireducens. Bmc Genomics. 10: 447. PMID 19772637 DOI: 10.1186/1471-2164-10-447 |
0.372 |
|
| 2009 |
Sun J, Sayyar B, Butler JE, Pharkya P, Fahland TR, Famili I, Schilling CH, Lovley DR, Mahadevan R. Genome-scale constraint-based modeling of Geobacter metallireducens. Bmc Systems Biology. 3: 15. PMID 19175927 DOI: 10.1186/1752-0509-3-15 |
0.405 |
|
| 2008 |
Izallalen M, Mahadevan R, Burgard A, Postier B, Didonato R, Sun J, Schilling CH, Lovley DR. Geobacter sulfurreducens strain engineered for increased rates of respiration. Metabolic Engineering. 10: 267-75. PMID 18644460 DOI: 10.1016/J.Ymben.2008.06.005 |
0.417 |
|
| 2008 |
Anesiadis N, Cluett WR, Mahadevan R. Dynamic metabolic engineering for increasing bioprocess productivity. Metabolic Engineering. 10: 255-66. PMID 18606241 DOI: 10.1016/J.Ymben.2008.06.004 |
0.821 |
|
| 2008 |
Mahadevan R, Yan B, Postier B, Nevin KP, Woodard TL, O'Neil R, Coppi MV, Methé BA, Krushkal J. Characterizing regulation of metabolism in Geobacter sulfurreducens through genome-wide expression data and sequence analysis. Omics : a Journal of Integrative Biology. 12: 33-59. PMID 18266557 DOI: 10.1089/Omi.2007.0043 |
0.446 |
|
| 2008 |
Segura D, Mahadevan R, Juárez K, Lovley DR. Computational and experimental analysis of redundancy in the central metabolism of Geobacter sulfurreducens. Plos Computational Biology. 4: e36. PMID 18266464 DOI: 10.1371/Journal.Pcbi.0040036 |
0.473 |
|
| 2008 |
Mahadevan R, Lovley DR. The degree of redundancy in metabolic genes is linked to mode of metabolism Biophysical Journal. 94: 1216-1220. PMID 17981891 DOI: 10.1529/Biophysj.107.118414 |
0.439 |
|
| 2008 |
Yang L, Mahadevan R, Cluett WR. A bilevel optimization algorithm to identify enzymatic capacity constraints in metabolic networks Computers and Chemical Engineering. 32: 2072-2085. DOI: 10.1016/J.Compchemeng.2007.10.015 |
0.728 |
|
| 2008 |
Dhurjati P, Mahadevan R. Systems biology: The synergistic interplay between biology and mathematics Canadian Journal of Chemical Engineering. 86: 127-141. DOI: 10.1002/Cjce.20025 |
0.309 |
|
| 2007 |
Oh YK, Palsson BO, Park SM, Schilling CH, Mahadevan R. Genome-scale reconstruction of metabolic network in Bacillus subtilis based on high-throughput phenotyping and gene essentiality data. The Journal of Biological Chemistry. 282: 28791-9. PMID 17573341 DOI: 10.1074/Jbc.M703759200 |
0.423 |
|
| 2007 |
Hjersted JL, Henson MA, Mahadevan R. Genome-scale analysis of Saccharomyces cerevisiae metabolism and ethanol production in fed-batch culture. Biotechnology and Bioengineering. 97: 1190-204. PMID 17243146 DOI: 10.1002/Bit.21332 |
0.439 |
|
| 2006 |
Mahadevan R, Bond DR, Butler JE, Esteve-Nuñez A, Coppi MV, Palsson BO, Schilling CH, Lovley DR. Characterization of metabolism in the Fe(III)-reducing organism Geobacter sulfurreducens by constraint-based modeling. Applied and Environmental Microbiology. 72: 1558-68. PMID 16461711 DOI: 10.1128/Aem.72.2.1558-1568.2006 |
0.425 |
|
| 2006 |
Gadkar KG, Mahadevan R, Doyle FJ. Optimal genetic manipulations in batch bioreactor control Automatica. 42: 1723-1733. DOI: 10.1016/J.Automatica.2006.05.004 |
0.521 |
|
| 2005 |
Famili I, Mahadevan R, Palsson BO. k-Cone analysis: determining all candidate values for kinetic parameters on a network scale. Biophysical Journal. 88: 1616-25. PMID 15626710 DOI: 10.1529/Biophysj.104.050385 |
0.333 |
|
| 2005 |
Gadkar KG, Doyle Iii FJ, Edwards JS, Mahadevan R. Estimating optimal profiles of genetic alterations using constraint-based models. Biotechnology and Bioengineering. 89: 243-51. PMID 15593263 DOI: 10.1002/Bit.20349 |
0.417 |
|
| 2005 |
Mahadevan R, Palsson BO. Properties of metabolic networks: structure versus function. Biophysical Journal. 88: L07-9. PMID 15574705 DOI: 10.1529/Biophysj.104.055723 |
0.34 |
|
| 2005 |
Mahadevan R, Burgard AP, Famili I, Van Dien S, Schilling CH. Applications of metabolic modeling to drive bioprocess development for the production of value-added chemicals Biotechnology and Bioprocess Engineering. 10: 408-417. DOI: 10.1007/Bf02989823 |
0.499 |
|
| 2004 |
Wiback SJ, Mahadevan R, Palsson BØ. Using metabolic flux data to further constrain the metabolic solution space and predict internal flux patterns: the Escherichia coli spectrum. Biotechnology and Bioengineering. 86: 317-31. PMID 15083512 DOI: 10.1002/Bit.20011 |
0.419 |
|
| 2004 |
Mahadevan R, Doyle FJ. A partial flatness approach to nonlinear moving horizon estimation Proceedings of the American Control Conference. 1: 211-215. |
0.37 |
|
| 2003 |
Mahadevan R, Schilling CH. The effects of alternate optimal solutions in constraint-based genome-scale metabolic models Metabolic Engineering. 5: 264-276. PMID 14642354 DOI: 10.1016/J.Ymben.2003.09.002 |
0.402 |
|
| 2003 |
Wiback SJ, Mahadevan R, Palsson BØ. Reconstructing metabolic flux vectors from extreme pathways: defining the alpha-spectrum. Journal of Theoretical Biology. 224: 313-24. PMID 12941590 DOI: 10.1016/S0022-5193(03)00168-1 |
0.378 |
|
| 2003 |
Mahadevan R, Doyle III FJ. On-line optimization of recombinant product in a fed-batch bioreactor. Biotechnology Progress. 19: 639-46. PMID 12675609 DOI: 10.1021/Bp025546Z |
0.343 |
|
| 2003 |
Mahadevan R, Doyle FJ. Efficient optimization approaches to nonlinear model predictive control International Journal of Robust and Nonlinear Control. 13: 309-329. DOI: 10.1002/Rnc.820 |
0.488 |
|
| 2002 |
Mahadevan R, Edwards JS, Doyle FJ. Dynamic flux balance analysis of diauxic growth in Escherichia coli. Biophysical Journal. 83: 1331-40. PMID 12202358 DOI: 10.1016/S0006-3495(02)73903-9 |
0.59 |
|
| 2002 |
Mahadevan R, Doyle FJ, Allcock AC. Control-relevant scheduling of polymer grade transitions Aiche Journal. 48: 1754-1764. DOI: 10.1002/Aic.690480816 |
0.436 |
|
| 2000 |
Mahadevan R, Agrawal SK, Doyle FJ. A Flatness Based Approach to Optimization in Fed-Batch Bioreactors Ifac Proceedings Volumes. 33: 111-116. DOI: 10.1016/S1474-6670(17)38527-0 |
0.462 |
|
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