Lerman, Joshua A

COBRApy: COnstraints-Based Reconstruction and Analysis for Python

Ebrahim, A., Lerman, J. A., Palsson, B. O., & Hyduke, D. R. (2013) · BMC Systems Biology

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 1,378

A comprehensive genome-scale reconstruction of Escherichia coli metabolism—2011

Orth, J. D., Conrad, T. M., Na, J., Lerman, J. A., Nam, H., Feist, A. M., & Palsson, B. Ø. (2011) · Molecular Systems Biology

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 1,006

BiGG Models: A platform for integrating, standardizing and sharing genome-scale models

King, Z. A., Lu, J., Dräger, A., Miller, P., Federowicz, S., Lerman, J. A., Ebrahim, A., Palsson, B. O., & Lewis, N. E. (2016) · Nucleic Acids Research

Microbial Metabolic Engineering and BioproductionBioinformatics and Genomic Networks

Cited by 938

Genome‐scale models of metabolism and gene expression extend and refine growth phenotype prediction

O'Brien, E. J., Lerman, J. A., Chang, R. L., Hyduke, D. R., & Palsson, B. Ø. (2013) · Molecular Systems Biology

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 471

Network Context and Selection in the Evolution to Enzyme Specificity

Nam, H., Lewis, N. E., Lerman, J. A., Lee, D.-H., Chang, R. L., Kim, D., & Palsson, B. O. (2012) · Science

Microbial Metabolic Engineering and BioproductionBioinformatics and Genomic Networks

Cited by 277

In silico method for modelling metabolism and gene product expression at genome scale

Lerman, J. A., Hyduke, D. R., Latif, H., Portnoy, V. A., Lewis, N. E., Orth, J. D., Schrimpe-Rutledge, A. C., Smith, R. D., Adkins, J. N., Zengler, K., et al. (2012) · Nature Communications

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 266

Multi-omic data integration enables discovery of hidden biological regularities

Ebrahim, A., Brunk, E., Tan, J., O'Brien, E. J., Kim, D., Szubin, R., Lerman, J. A., Lechner, A., Sastry, A., Bordbar, A., et al. (2016) · Nature Communications

Bioinformatics and Genomic NetworksMicrobial Metabolic Engineering and Bioproduction

Cited by 155

Do genome-scale models need exact solvers or clearer standards?

Ebrahim, A., Almaas, E., Bauer, E., Bordbar, A., Burgard, A. P., Chang, R. L., Dräger, A., Famili, I., Feist, A. M., Fleming, R. M., et al. (2015) · Molecular Systems Biology

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 57