Horizontal transfer of a pathway for coumarate catabolism unexpectedly inhibits purine nucleotide biosynthesis

Biochemical mechanisms determine the functional compatibility of heterologous genes

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Rapid, parallel identification of pathways for catabolism of lignin-derived aromatic compounds in Novosphingobium aromaticivorans

(2018) Jacob H. Cecil et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

OpenMM 7: Rapid development of high performance algorithms for molecular dynamics

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Engineering Cellular Metabolism

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Metabolite concentrations, fluxes and free energies imply efficient enzyme usage

(2016) Junyoung O Park et al.   Nature Chemical Biology

Multigene Editing in the Escherichia coli Genome via the CRISPR-Cas9 System

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Phenolic Amides Are Potent Inhibitors ofDe NovoNucleotide Biosynthesis

(2015) Tippapha Pisithkul et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Transcriptome analysis of Zymomonas mobilis ZM4 reveals mechanisms of tolerance and detoxification of phenolic aldehyde inhibitors from lignocellulose pretreatment

(2015) Xia Yi et al.   Biotechnology for Biofuels

A Novel Cofactor-binding Mode in Bacterial IMP Dehydrogenases Explains Inhibitor Selectivity

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Tolerance engineering in bacteria for the production of advanced biofuels and chemicals

(2015) Aindrila Mukhopadhyay   TRENDS IN MICROBIOLOGY

Synthetic and Evolutionary Construction of a Chlorate-Reducing Shewanella oneidensis MR-1

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A comparative multidimensional LC-MS proteomic analysis reveals mechanisms for furan aldehyde detoxification in Thermoanaerobacter pseudethanolicus 39E

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Characterization of p-Hydroxycinnamate Catabolism in a Soil Actinobacterium

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Lignin Valorization: Improving Lignin Processing in the Biorefinery

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Mutations in Global Regulators Lead to Metabolic Selection during Adaptation to Complex Environments

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Effective use of a horizontally-transferred pathway for dichloromethane catabolism requires post–transfer refinement

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MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

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Characterization of 582 natural and synthetic terminators and quantification of their design constraints

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Small-molecule ligand docking into comparative models with Rosetta

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Translation rate is controlled by coupled trade-offs between site accessibility, selective RNA unfolding and sliding at upstream standby sites

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Development of an Optimized Medium, Strain and High-Throughput Culturing Methods for Methylobacterium extorquens

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High-Resolution Comparative Modeling with RosettaCM

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ZINC: A Free Tool to Discover Chemistry for Biology

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Optimization of the Additive CHARMM All-Atom Protein Force Field Targeting Improved Sampling of the Backbone ϕ, ψ and Side-Chain χ1 and χ2 Dihedral Angles

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Identification and treatment of heme depletion attributed to overexpression of a lineage of evolved P450 monooxygenases

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Inhibitory cross-talk upon introduction of a new metabolic pathway into an existing metabolic network

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Pathways for degradation of lignin in bacteria and fungi

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Generalized Fragment Picking in Rosetta: Design, Protocols and Applications

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Skyline: an open source document editor for creating and analyzing targeted proteomics experiments

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The Structural Basis of Cryptosporidium-Specific IMP Dehydrogenase Inhibitor Selectivity

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Cellulosic hydrolysate toxicity and tolerance mechanisms in Escherichia coli

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IMP Dehydrogenase: Structure, Mechanism, and Inhibition

(2009) Lizbeth Hedstrom   CHEMICAL REVIEWS

IDPicker 2.0: Improved Protein Assembly with High Discrimination Peptide Identification Filtering

(2009) Ze-Qiang Ma et al.   JOURNAL OF PROTEOME RESEARCH

Automated design of synthetic ribosome binding sites to control protein expression

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Absolute metabolite concentrations and implied enzyme active site occupancy in Escherichia coli

(2009) Bryson D Bennett et al.   Nature Chemical Biology

Application of Functional Genomics to Pathway Optimization for Increased Isoprenoid Production

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CHARMM-GUI: A web-based graphical user interface for CHARMM

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