Costas Maranas

Donald B. Broughton Professor of Chemical Engineering

Costas Maranas

Research Summary

Computational studies of metabolism and gene regulation.

Huck Affiliations

Links

Publication Tags

Escherichia Coli Genome Genes Fluxes Metabolites Enzymes Metabolism Metabolic Networks And Pathways Carbon Water Nadp Thermodynamics Wire Ethanol Metabolic Engineering Proteins Chemical Analysis Peptides Enzyme Kinetics Kinetics Model Biomass Availability Adenosine Triphosphate Growth

Most Recent Papers

Artificial water channels enable fast and selective water permeation through water-wire networks

Woochul Song, Himanshu Joshi, Ratul Chowdhury, Joseph S. Najem, Yue xiao Shen, Chao Lang, Codey B. Henderson, Yu Ming Tu, Megan Farell, Megan E. Pitz, Costas D. Maranas, Paul S. Cremer, Robert J. Hickey, Stephen A. Sarles, Jun li Hou, Aleksei Aksimentiev, Manish Kumar, 2020, Nature nanotechnology on p. 73-79

Pareto Optimality Explanation of the Glycolytic Alternatives in Nature

Chiam Yu Ng, Lin Wang, Anupam Chowdhury, Costas D. Maranas, 2019, Scientific reports

A comprehensive genome-scale model for Rhodosporidium toruloides IFO0880 accounting for functional genomics and phenotypic data

Hoang V. Dinh, Patrick F. Suthers, Siu Hung Joshua Chan, Yihui Shen, Tianxia Xiao, Anshu Deewan, Sujit S. Jagtap, Huimin Zhao, Christopher V. Rao, Joshua D. Rabinowitz, Costas D. Maranas, 2019, Metabolic Engineering Communications

7 Log Virus Removal in a Simple Functionalized Sand Filter

Laxmicharan Samineni, Boya Xiong, Ratul Chowdhury, Andrew Pei, Louise Kuehster, Huiran Wang, Roman Dickey, Paula Espinoza Soto, Lynnicia Massenburg, Thanh H. Nguyen, Costas Maranas, Darrell Velegol, Manish Kumar, Stephanie Velegol, 2019, Environmental Science and Technology on p. 12706-12714

Directed Evolution Reveals the Functional Sequence Space of an Adenylation Domain Specificity Code

Kurt Throckmorton, Vladimir Vinnik, Ratul Chowdhury, Taylor Cook, Marc G. Chevrette, Costas Maranas, Brian Pfleger, Michael George Thomas, 2019, ACS chemical biology on p. 2044-2054

Thermodynamic analysis of the pathway for ethanol production from cellobiose in Clostridium thermocellum

Satyakam Dash, Daniel G. Olson, Siu Hung Joshua Chan, Daniel Amador-Noguez, L. R. Lynd, Costas D. Maranas, 2019, Metabolic engineering on p. 161-169

Predicting the longitudinally and radially varying gut microbiota composition using multi-scale microbial metabolic modeling

Siu H.J. Chan, Elliot S. Friedman, Gary D. Wu, Costas D. Maranas, 2019, Processes

Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0

Laurent Heirendt, Sylvain Arreckx, Thomas Pfau, Sebastián N. Mendoza, Anne Richelle, Almut Heinken, Hulda S. Haraldsdóttir, Jacek Wachowiak, Sarah M. Keating, Vanja Vlasov, Stefania Magnusdóttir, Chiam Yu Ng, German Preciat, Alise Žagare, Siu H.J. Chan, Maike K. Aurich, Catherine M. Clancy, Jennifer Modamio, John T. Sauls, Alberto Noronha, Aarash Bordbar, Benjamin Cousins, Diana C. El Assal, Luis V. Valcarcel, Iñigo Apaolaza, Susan Ghaderi, Masoud Ahookhosh, Marouen Ben Guebila, Andrejs Kostromins, Nicolas Sompairac, Hoai M. Le, Ding Ma, Yuekai Sun, Lin Wang, James T. Yurkovich, Miguel A.P. Oliveira, Phan T. Vuong, Lemmer P. El Assal, Inna Kuperstein, Andrei Zinovyev, H. Scott Hinton, William A. Bryant, Francisco J. Aragón Artacho, Francisco J. Planes, Egils Stalidzans, Alejandro Maass, Santosh Vempala, Michael Hucka, Michael A. Saunders, Costas D. Maranas, Nathan E. Lewis, Thomas Sauter, Bernhard Palsson, Ines Thiele, Ronan M.T. Fleming, 2019, Nature Protocols on p. 639-702

Genome-Scale fluxome of Synechococcus elongatus UTEX 2973 using transient <sup>13</sup> C-labeling data

John I. Hendry, Saratram Gopalakrishnan, Justin Ungerer, Himadri B. Pakrasi, Yinjie J. Tang, Costas D. Maranas, 2019, Plant physiology on p. 761-769

From directed evolution to computational enzyme engineering—A review

Ratul Chowdhury, Costas D. Maranas, 2019, AIChE Journal

Most-Cited Papers

OptForce

Sridhar Ranganathan, Patrick F. Suthers, Costas D. Maranas, 2010, PLoS computational biology

Genome-scale metabolic network modeling results in minimal interventions that cooperatively force carbon flux towards malonyl-CoA

Peng Xu, Sridhar Ranganathan, Zachary L. Fowler, Costas D. Maranas, Mattheos A.G. Koffas, 2011, Metabolic engineering on p. 578-587

OptCom

Ali R. Zomorrodi, Costas D. Maranas, 2012, PLoS computational biology

D-OptCom

Ali R. Zomorrodi, Mohammad Mazharul Islam, Costas D. Maranas, 2014, ACS Synthetic Biology on p. 247-257

MetRxn

Akhil Kumar, Patrick F. Suthers, Costas D. Maranas, 2012, BMC bioinformatics

A kinetic model of Escherichia coli core metabolism satisfying multiple sets of mutant flux data

Ali Khodayari, Ali R. Zomorrodi, James C. Liao, Costas D. Maranas, 2014, Metabolic engineering on p. 50-62

Rational design of a synthetic Entner-Doudoroff pathway for improved and controllable NADPH regeneration

Chiam Yu Ng, Iman Farasat, Costas D. Maranas, Howard M. Salis, 2015, Metabolic engineering on p. 86-96

Computational tools for metabolic engineering

Wilbert B. Copeland, Bryan A. Bartley, Deepak Chandran, Michal Galdzicki, Kyung H. Kim, Sean C. Sleight, Costas D. Maranas, Herbert M. Sauro, 2012, Metabolic engineering on p. 270-280

A genome-scale Escherichia coli kinetic metabolic model k-ecoli457 satisfying flux data for multiple mutant strains

Ali Khodayari, Costas D. Maranas, 2016, Nature communications

Improving the iMM904 S. cerevisiae metabolic model using essentiality and synthetic lethality data

Ali R. Zomorrodi, Costas D. Maranas, 2010, BMC systems biology