Costas D. Maranas is the Donald B. Broughton Professor of Chemical Engineering at The Pennsylvania State University. He earned his B.S. in Chemical Engineering from Aristotle University in 1990 and his Ph.D. from Princeton University in 1995. Dr. Maranas specializes in biotechnology, synthetic biology, and systems engineering, focusing on the reconstruction, analysis, and redesign of metabolic networks, computational protein and enzyme design, and optimization theory.
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Projects
Recent Publications
Reconstruction of a resource balance analysis model of Clostridium thermocellum examines the metabolic cost of glycolytic and cellulosome enzymes
Willis, T. C., Schroeder, W. L., Khana, D. B., Qian, X., Dahal, S., Amador-Noguez, D. & Maranas, C. D., Jan 2026, In: Metabolic engineering. 93, p. 14-23 10 p.Research output: Contribution to journal › Article › peer-review
minChemBio: Expanding Chemical Synthesis with Chemo-Enzymatic Pathways Using Minimal Transitions
Anand, M., Upadhyay, V. & Maranas, C. D., Mar 21 2025, In: ACS Synthetic Biology. 14, 3, p. 756-770 15 p.Research output: Contribution to journal › Article › peer-review
CatPred: a comprehensive framework for deep learning in vitro enzyme kinetic parameters
Boorla, V. S. & Maranas, C. D., Dec 2025, In: Nature communications. 16, 1, 2072.Research output: Contribution to journal › Article › peer-review
Reframing the role of the objective function in its proper context for metabolic network modeling
Islam, M. M., Shao, W., Batavia, M., Ford, R. M., Palsson, B. O., Nielsen, J., Maranas, C. D., Lee, S. Y. & Papin, J. A., Jun 18 2025, In: Cell Systems. 16, 6, 101298.Research output: Contribution to journal › Comment/debate › peer-review
Combining Chemical Catalysis with Enzymatic Steps for the Synthesis of the Artemisinin Precursor Dihydroartemisinic Acid
Upadhyay, V., Li, H., He, J., Ocampo, B. E., Cook, S., Zhao, H. & Maranas, C. D., Apr 18 2025, In: ACS Synthetic Biology. 14, 4, p. 1112-1120 9 p.Research output: Contribution to journal › Article › peer-review
novoStoic2.0: An integrated framework for pathway synthesis, thermodynamic evaluation, and enzyme selection
Upadhyay, V., Anand, M. & Maranas, C. D., Aug 2025, In: PLoS computational biology. 21, 8 August, e1012516.Research output: Contribution to journal › Article › peer-review
A multi-tissue genome-scale model of Populus trichocarpa elucidates overexpression targets for improving drought tolerance
Barbosa, J. S. C., Schroeder, W. L., Suthers, P. F., Jawdy, S. S., Chen, J. G., Muchero, W. & Maranas, C. D., 2024, In: In Silico Plants. 6, 1, diae007.Research output: Contribution to journal › Article › peer-review
Data-driven and physics informed modeling of Chinese Hamster Ovary cell bioreactors
Cui, T., Bertalan, T., Ndahiro, N., Khare, P., Betenbaugh, M., Maranas, C. & Kevrekidis, I. G., Apr 2024, In: Computers and Chemical Engineering. 183, 108594.Research output: Contribution to journal › Article › peer-review
KETCHUP: Parameterizing of large-scale kinetic models using multiple datasets with different reference states
Hu, M., Suthers, P. F. & Maranas, C. D., Mar 2024, In: Metabolic engineering. 82, p. 123-133 11 p.Research output: Contribution to journal › Article › peer-review
Dehydrated Biomimetic Membranes with Skinlike Structure and Function
Oh, H., Tu, Y. M., Samineni, L., De Respino, S., Mehrafrooz, B., Joshi, H., Massenburg, L., Lopez-Marques, H., Elessawy, N., Song, W., Behera, H., Dhiman, R., Boorla, V. S., Kher, K., Lin, Y. C., Maranas, C., Aksimentiev, A., D. Freeman, B. & Kumar, M., 2024, (Accepted/In press) In: ACS Applied Materials and Interfaces.Research output: Contribution to journal › Article › peer-review
Current State, Challenges, and Opportunities in Genome-Scale Resource Allocation Models: A Mathematical Perspective
Schroeder, W. L., Suthers, P. F., Willis, T. C., Mooney, E. J. & Maranas, C. D., Jul 2024, In: Metabolites. 14, 7, 365.Research output: Contribution to journal › Review article › peer-review
Genome streamlining to improve performance of a fast-growing cyanobacterium Synechococcus elongatus UTEX 2973
Sengupta, A., Bandyopadhyay, A., Sarkar, D., Hendry, J. I., Schubert, M. G., Liu, D., Church, G. M., Maranas, C. D. & Pakrasi, H. B., Mar 2024, In: mBio. 15, 3Research output: Contribution to journal › Article › peer-review
Mitochondrial ATP generation is more proteome efficient than glycolysis
Shen, Y., Dinh, H. V., Cruz, E. R., Chen, Z., Bartman, C. R., Xiao, T., Call, C. M., Ryseck, R. P., Pratas, J., Weilandt, D., Baron, H., Subramanian, A., Fatma, Z., Wu, Z. Y., Dwaraknath, S., Hendry, J. I., Tran, V. G., Yang, L., Yoshikuni, Y. & Zhao, H. & 3 others, , Sep 2024, In: Nature Chemical Biology. 20, 9, p. 1123-1132 10 p.Research output: Contribution to journal › Article › peer-review
De novo design and Rosetta-based assessment of high-affinity antibody variable regions (Fv) against the SARS-CoV-2 spike receptor binding domain (RBD)
Boorla, V. S., Chowdhury, R., Ramasubramanian, R., Ameglio, B., Frick, R., Gray, J. J. & Maranas, C. D., Feb 2023, In: Proteins: Structure, Function and Bioinformatics. 91, 2, p. 196-208 13 p.Research output: Contribution to journal › Article › peer-review
Deuterated water as a substrate-agnostic isotope tracer for investigating reversibility and thermodynamics of reactions in central carbon metabolism
Callaghan, M. M., Thusoo, E., Sharma, B. D., Getahun, F., Stevenson, D. M., Maranas, C., Olson, D. G., Lynd, L. R. & Amador-Noguez, D., Nov 2023, In: Metabolic engineering. 80, p. 254-266 13 p.Research output: Contribution to journal › Article › peer-review