|
| 36416273 | ClusterCAD 2.0: an updated computational platform for chimeric type I polyketide synthase and nonribosomal peptide synthetase design. | Nucleic Acids Res | 2023 |
| 37948450 | BayFlux: A Bayesian method to quantify metabolic Fluxes and their uncertainty at the genome scale. | PLoS Comput Biol | 2023 |
| 37186551 | A High-Quality Genome-Scale Model for <i>Rhodococcus opacus</i> Metabolism. | ACS Synth Biol | 2023 |
| 36603501 | Perspectives for self-driving labs in synthetic biology. | Curr Opin Biotechnol | 2023 |
| 35359611 | Scalable and automated CRISPR-based strain engineering using droplet microfluidics. | Microsyst Nanoeng | 2022 |
| 35857932 | MACAW: An Accessible Tool for Molecular Embedding and Inverse Molecular Design. | J Chem Inf Model | 2022 |
| 33221420 | Machine learning for metabolic engineering: A review. | Metab Eng | 2021 |
| 33634086 | Multiomics Data Collection, Visualization, and Utilization for Guiding Metabolic Engineering. | Front Bioeng Biotechnol | 2021 |
| 34172951 | Microbial production of advanced biofuels. | Nat Rev Microbiol | 2021 |
| 32412752 | Chemoinformatic-Guided Engineering of Polyketide Synthases. | J Am Chem Soc | 2020 |
| 31841635 | Identification, Characterization, and Application of a Highly Sensitive Lactam Biosensor from <i>Pseudomonas putida</i>. | ACS Synth Biol | 2020 |
| 32978375 | Combining mechanistic and machine learning models for predictive engineering and optimization of tryptophan metabolism. | Nat Commun | 2020 |
| 32978379 | A machine learning Automated Recommendation Tool for synthetic biology. | Nat Commun | 2020 |
| 30645629 | Machine learning framework for assessment of microbial factory performance. | PLoS One | 2019 |
| 31271774 | A concerted systems biology analysis of phenol metabolism in Rhodococcus opacus PD630. | Metab Eng | 2019 |
| 31436101 | Automated "Cells-To-Peptides" Sample Preparation Workflow for High-Throughput, Quantitative Proteomic Assays of Microbes. | J Proteome Res | 2019 |
| 31319671 | Opportunities at the Intersection of Synthetic Biology, Machine Learning, and Automation. | ACS Synth Biol | 2019 |
| 31548653 | Common principles and best practices for engineering microbiomes. | Nat Rev Microbiol | 2019 |
| 31518500 | Robust Characterization of Two Distinct Glutarate Sensing Transcription Factors of <i>Pseudomonas putida</i> l-Lysine Metabolism. | ACS Synth Biol | 2019 |
| 31072100 | Lessons from Two Design-Build-Test-Learn Cycles of Dodecanol Production in Escherichia coli Aided by Machine Learning. | ACS Synth Biol | 2019 |
| 31115703 | Structural insights into dehydratase substrate selection for the borrelidin and fluvirucin polyketide synthases. | J Ind Microbiol Biotechnol | 2019 |
| 30421239 | Genome-Scale <sup>13</sup>C Fluxomics Modeling for Metabolic Engineering of Saccharomyces cerevisiae. | Methods Mol Biol | 2019 |
| 29040649 | ClusterCAD: a computational platform for type I modular polyketide synthase design. | Nucleic Acids Res | 2018 |
| 29872542 | A machine learning approach to predict metabolic pathway dynamics from time-series multiomics data. | NPJ Syst Biol Appl | 2018 |
| 30351913 | Parallel Integration and Chromosomal Expansion of Metabolic Pathways. | ACS Synth Biol | 2018 |
| 29729378 | Leveraging knowledge engineering and machine learning for microbial bio-manufacturing. | Biotechnol Adv | 2018 |
| 29559655 | Industrial brewing yeast engineered for the production of primary flavor determinants in hopped beer. | Nat Commun | 2018 |
| 29300340 | Constraining Genome-Scale Models to Represent the Bow Tie Structure of Metabolism for <sup>13</sup>C Metabolic Flux Analysis. | Metabolites | 2018 |
| 29170969 | Two-Scale <sup>13</sup>C Metabolic Flux Analysis for Metabolic Engineering. | Methods Mol Biol | 2018 |
| 28606738 | Engineering high-level production of fatty alcohols by Saccharomyces cerevisiae from lignocellulosic feedstocks. | Metab Eng | 2017 |
| 28381205 | The JBEI quantitative metabolic modeling library (jQMM): a python library for modeling microbial metabolism. | BMC Bioinformatics | 2017 |
| 28420344 | Erratum to: The JBEI quantitative metabolic modeling library (jQMM): a python library for modeling microbial metabolism. | BMC Bioinformatics | 2017 |
| 28596955 | Flux-Enabled Exploration of the Role of Sip1 in Galactose Yeast Metabolism. | Front Bioeng Biotechnol | 2017 |
| 28826210 | The Experiment Data Depot: A Web-Based Software Tool for Biological Experimental Data Storage, Sharing, and Visualization. | ACS Synth Biol | 2017 |
| 27211860 | Characterizing Strain Variation in Engineered E. coli Using a Multi-Omics-Based Workflow. | Cell Syst | 2016 |
| 28725470 | Synthetic and systems biology for microbial production of commodity chemicals. | NPJ Syst Biol Appl | 2016 |
| 27766116 | Examining <i>Escherichia coli</i> glycolytic pathways, catabolite repression, and metabolite channeling using ο<i>pfk</i> mutants. | Biotechnol Biofuels | 2016 |
| 27761435 | <sup>13</sup>C Metabolic Flux Analysis for Systematic Metabolic Engineering of <i>S. cerevisiae</i> for Overproduction of Fatty Acids. | Front Bioeng Biotechnol | 2016 |
| 25554074 | Principal component analysis of proteomics (PCAP) as a tool to direct metabolic engineering. | Metab Eng | 2015 |
| 26379153 | A Method to Constrain Genome-Scale Models with 13C Labeling Data. | PLoS Comput Biol | 2015 |
| 24679043 | Microbial synthesis of pinene. | ACS Synth Biol | 2014 |
| 25188426 | A peptide-based method for 13C Metabolic Flux Analysis in microbial communities. | PLoS Comput Biol | 2014 |
| 23667235 | HipA-triggered growth arrest and β-lactam tolerance in Escherichia coli are mediated by RelA-dependent ppGpp synthesis. | J Bacteriol | 2013 |
| 19899123 | Study of stationary phase metabolism via isotopomer analysis of amino acids from an isolated protein. | Biotechnol Prog | 2010 |
| 20148930 | Metatranscriptomic array analysis of 'Candidatus Accumulibacter phosphatis'-enriched enhanced biological phosphorus removal sludge. | Environ Microbiol | 2010 |
| 19031428 | Metabolic flux analysis of Shewanella spp. reveals evolutionary robustness in central carbon metabolism. | Biotechnol Bioeng | 2009 |
| 19610125 | Invariability of central metabolic flux distribution in Shewanella oneidensis MR-1 under environmental or genetic perturbations. | Biotechnol Prog | 2009 |
| 19025966 | Advances in analysis of microbial metabolic fluxes via (13)C isotopic labeling. | Mass Spectrom Rev | 2009 |
| 18077539 | A bacterial metapopulation adapts locally to phage predation despite global dispersal. | Genome Res | 2008 |
| 17179938 | Accurate phylogenetic classification of variable-length DNA fragments. | Nat Methods | 2007 |