Zielinski, Daniel C.

Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0

Schellenberger, J., Que, R., Fleming, R. M. T., Thiele, I., Orth, J. D., Feist, A. M., Zielinski, D. C., Bordbar, A., Lewis, N. E., Rahmanian, S., et al. (2011) · Nature Protocols

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 1,835

Recon 2.2: from reconstruction to model of human metabolism

Swainston, N., Smallbone, K., Hefzi, H., Dobson, P. D., Brewer, J., Hanscho, M., Zielinski, D. C., Ang, K. S., Gardiner, N. J., Gutierrez, J. M., et al. (2016) · Metabolomics

Microbial Metabolic Engineering and BioproductionBioinformatics and Genomic Networks

Cited by 285

Model-driven evaluation of the production potential for growth-coupled products of Escherichia coli

Feist, A. M., Zielinski, D. C., Orth, J. D., Schellenberger, J., Herrgard, M. J., & Palsson, B. Ø. (2010) · Metabolic Engineering

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 238

Machine learning applied to enzyme turnover numbers reveals protein structural correlates and improves metabolic models

Heckmann, D., Lloyd, C. J., Mih, N., Ha, Y., Zielinski, D. C., Haiman, Z. B., Desouki, A. A., Lercher, M. J., & Palsson, B. O. (2018) · Nature Communications

Microbial Metabolic Engineering and BioproductionBioinformatics and Genomic Networks

Cited by 218

The quantitative metabolome is shaped by abiotic constraints

Akbari, A., Yurkovich, J. T., Zielinski, D. C., & Palsson, B. O. (2021) · Nature Communications

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 24

Bottom-up parameterization of enzyme rate constants: Reconciling inconsistent data

Zielinski, D. C., Matos, M. R. A., de Bree, J. E., Glass, K., Sonnenschein, N., & Palsson, B. O. (2024) · Metabolic Engineering Communications

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 6

Bottom-up parameterization of enzyme rate constants: Reconciling inconsistent data

Zielinski, D. C., Matos, M. R. A., de Bree, J. E., Glass, K., Sonnenschein, N., & Palsson, B. O. (2023) · Metabolic Engineering Communications

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 6