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 Cyanobacteria Nitrogen Metabolic Fluxes Metabolites Genes Enzymes Biomass Metabolism Fatty Acids Kinetics Modeling Symbiosis Metabolite Metabolic Networks And Pathways Metabolic Engineering Carbon Strain Lignin Nutrients Oxygen Enzyme Kinetics Microorganisms

Most Recent Papers

EnZymClass

Deepro Banerjee, Michael A. Jindra, Alec J. Linot, Brian F. Pfleger, Costas D. Maranas, 2022, Current Research in Biotechnology on p. 1-9

Quantifying the propagation of parametric uncertainty on flux balance analysis

Hoang V. Dinh, Debolina Sarkar, Costas D. Maranas, 2022, Metabolic Engineering on p. 26-39

Recombination and lineage-specific mutations linked to the emergence of SARS-CoV-2

Juan Ángel Patiño-Galindo, Ioan Filip, Ratul Chowdhury, Costas D. Maranas, Peter K. Sorger, Mohammed AlQuraishi, Raul Rabadan, 2021, Genome Medicine

Computational prediction of the effect of amino acid changes on the binding affinity between SARS-CoV-2 spike RBD and human ACE2

Chen Chen, Veda Sheersh Boorla, Deepro Banerjee, Ratul Chowdhury, Victoria S. Cavener, Ruth H. Nissly, Abhinay Gontu, Nina R. Boyle, Kurt Vandegrift, Meera Surendran Nair, Suresh V. Kuchipudi, Costas D. Maranas, 2021, Proceedings of the National Academy of Sciences of the United States of America

dGPredictor

Lin Wang, Vikas Upadhyay, Costas D. Maranas, 2021, PLoS Computational Biology

Computationally Prospecting Potential Pathways from Lignin Monomers and Dimers toward Aromatic Compounds

Lin Wang, Costas D. Maranas, 2021, ACS Synthetic Biology on p. 1064-1076

Elucidation of trophic interactions in an unusual single-cell nitrogen-fixing symbiosis using metabolic modeling

Debolina Sarkar, Marine Landa, Anindita Bandyopadhyay, Himadri B. Pakrasi, Jonathan P. Zehr, Costas D. Maranas, 2021, PLoS Computational Biology

A genome-scale metabolic model of anabaena 33047 to guide genetic modifications to overproduce nylon monomers

John I. Hendry, Hoang V. Dinh, Debolina Sarkar, Lin Wang, Anindita Bandyopadhyay, Himadri B. Pakrasi, Costas D. Maranas, 2021, Metabolites

Engineering biology approaches for food and nutrient production by cyanobacteria

Deng Liu, Michelle Liberton, John I. Hendry, Javad Aminian-Dehkordi, Costas D. Maranas, Himadri B. Pakrasi, 2021, Current Opinion in Biotechnology on p. 1-6

Building kinetic models for metabolic engineering

Charles J. Foster, Lin Wang, Hoang V. Dinh, Patrick F. Suthers, Costas D. Maranas, 2021, Current Opinion in Biotechnology on p. 35-41

Most-Cited Papers

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

OptCom

Ali R. Zomorrodi, Costas D. Maranas, 2012, PLoS Computational Biology on p. e1002363

Synthetic biology of cyanobacteria

Bertram M. Berla, Rajib Saha, Cheryl M. Immethun, Costas D. Maranas, Tae Seok Moon, Himadri B. Pakrasi, 2013, Frontiers in Microbiology

D-OptCom

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

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

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

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

Mathematical optimization applications in metabolic networks

Ali R. Zomorrodi, Patrick F. Suthers, Sridhar Ranganathan, Costas D. Maranas, 2012, Metabolic Engineering on p. 672-686

MetRxn

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

An integrated computational and experimental study for overproducing fatty acids in Escherichia coli

Sridhar Ranganathan, Ting Wei Tee, Anupam Chowdhury, Ali R. Zomorrodi, Jong Moon Yoon, Yanfen Fu, Jacqueline V. Shanks, Costas D. Maranas, 2012, Metabolic Engineering on p. 687-704