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Functional and structural characterization of an IclR family transcription factor for the development of dicarboxylic acid biosensors.
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- FEBS Journal, 2024, v. 291, n. 15, p. 3481, doi. 10.1111/febs.17149
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- Article
Ni(II)‐binding affinity of CcNikZ‐II and its homologs: the role of the HH‐prong and variable loop revealed by structural and mutational studies.
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- FEBS Journal, 2024, v. 291, n. 13, p. 2980, doi. 10.1111/febs.17125
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- Article
Molecular mechanism of plasmid-borne resistance to sulfonamide antibiotics.
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- Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-39778-7
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- Article
Engineered nickel bioaccumulation in Escherichia coli by NikABCDE transporter and metallothionein overexpression.
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- Engineering in Life Sciences, 2023, v. 23, n. 7, p. 1, doi. 10.1002/elsc.202200133
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- Article
Genome-Scale Metabolic Modeling Reveals Sequential Dysregulation of Glutathione Metabolism in Livers from Patients with Alcoholic Hepatitis.
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- Metabolites (2218-1989), 2022, v. 12, n. 12, p. 1157, doi. 10.3390/metabo12121157
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- Article
KinMod database: a tool for investigating metabolic regulation.
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- Database: The Journal of Biological Databases & Curation, 2022, v. 2022, p. 1, doi. 10.1093/database/baac081
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- Article
Systematizing the different notions of growth‐coupled product synthesis and a single framework for computing corresponding strain designs.
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- Biotechnology Journal, 2021, v. 16, n. 12, p. 1, doi. 10.1002/biot.202100236
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- Article
A gap-filling algorithm for prediction of metabolic interactions in microbial communities.
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- PLoS Computational Biology, 2021, v. 17, n. 11, p. 1, doi. 10.1371/journal.pcbi.1009060
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- Article
Could open science stimulate industry partnerships in chemical engineering university research?
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- Canadian Journal of Chemical Engineering, 2021, v. 99, n. 10, p. 2186, doi. 10.1002/cjce.24077
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- Article
Advancing undergraduate synthetic biology education: insights from a Canadian iGEM student perspective.
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- Canadian Journal of Microbiology, 2021, v. 67, n. 10, p. 749, doi. 10.1139/cjm-2020-0549
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- Article
Automation assisted anaerobic phenotyping for metabolic engineering.
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- Microbial Cell Factories, 2021, v. 20, n. 1, p. 1, doi. 10.1186/s12934-021-01675-3
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- Article
Integration of a physiologically-based pharmacokinetic model with a whole-body, organ-resolved genome-scale model for characterization of ethanol and acetaldehyde metabolism.
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- PLoS Computational Biology, 2021, v. 17, n. 8, p. 1, doi. 10.1371/journal.pcbi.1009110
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- Article
SARS-CoV-2 receptor-binding mutations and antibody contact sites.
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- Antibody Therapeutics, 2021, v. 4, n. 3, p. 149, doi. 10.1093/abt/tbab015
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- Article
Macrophage Immunomodulation Through New Polymers that Recapitulate Functional Effects of Itaconate as a Power House of Innate Immunity.
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- Advanced Functional Materials, 2021, v. 31, n. 6, p. 1, doi. 10.1002/adfm.202003341
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- Article
Genomic Analysis of a Newly Isolated Acidithiobacillus ferridurans JAGS Strain Reveals Its Adaptation to Acid Mine Drainage.
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- Minerals (2075-163X), 2021, v. 11, n. 1, p. 74, doi. 10.3390/min11010074
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- Article
Speeding up the core algorithm for the dual calculation of minimal cut sets in large metabolic networks.
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- BMC Bioinformatics, 2020, v. 21, n. 1, p. N.PAG, doi. 10.1186/s12859-020-03837-3
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- Article
Pan‐Genome‐Scale Network Reconstruction: Harnessing Phylogenomics Increases the Quantity and Quality of Metabolic Models.
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- Biotechnology Journal, 2020, v. 15, n. 10, p. 1, doi. 10.1002/biot.201900519
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- Article
A novel C-terminal degron identified in bacterial aldehyde decarbonylases using directed evolution.
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- Biotechnology for Biofuels, 2020, v. 13, n. 1, p. 1, doi. 10.1186/s13068-020-01753-5
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- Article
A scalable method for parameter identification in kinetic models of metabolism using steady-state data.
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- Bioinformatics, 2019, v. 35, n. 24, p. 5216, doi. 10.1093/bioinformatics/btz445
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- Article
AYbRAH: a curated ortholog database for yeasts and fungi spanning 600 million years of evolution.
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- Database: The Journal of Biological Databases & Curation, 2019, v. 2019, p. N.PAG, doi. 10.1093/database/baz022
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- Article
MoVE identifies metabolic valves to switch between phenotypic states.
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- Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-07719-4
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- Article
Inactivation of the transcription factor mig1 (YGL035C) in Saccharomyces cerevisiae improves tolerance towards monocarboxylic weak acids: acetic, formic and levulinic acid.
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- Journal of Industrial Microbiology & Biotechnology, 2018, v. 45, n. 8, p. 735, doi. 10.1007/s10295-018-2053-1
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- Article
Model-based design of bistable cell factories for metabolic engineering.
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- Bioinformatics, 2018, v. 34, n. 8, p. 1363, doi. 10.1093/bioinformatics/btx769
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- Article
When Do Two‐Stage Processes Outperform One‐Stage Processes?
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- Biotechnology Journal, 2018, v. 13, n. 2, p. 1, doi. 10.1002/biot.201700539
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- Article
Exploring Bacterial Carboxylate Reductases for the Reduction of Bifunctional Carboxylic Acids.
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- Biotechnology Journal, 2017, v. 12, n. 11, p. 1, doi. 10.1002/biot.201600751
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- Article
Redesigning metabolism based on orthogonality principles.
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- Nature Communications, 2017, v. 8, n. 5, p. 15188, doi. 10.1038/ncomms15188
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- Article
From elementary flux modes to elementary flux vectors: Metabolic pathway analysis with arbitrary linear flux constraints.
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- PLoS Computational Biology, 2017, v. 13, n. 4, p. 1, doi. 10.1371/journal.pcbi.1005409
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- Article
Experimental validation of in silico model-predicted isocitrate dehydrogenase and phosphomannose isomerase from D ehalococcoides mccartyi.
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- Microbial Biotechnology, 2016, v. 9, n. 1, p. 47, doi. 10.1111/1751-7915.12315
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- Article
Genome-scale strain designs based on regulatory minimal cut sets.
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- Bioinformatics, 2015, v. 31, n. 17, p. 2844, doi. 10.1093/bioinformatics/btv217
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- Article
Constructing kinetic models of metabolism at genome-scales: A review.
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- Biotechnology Journal, 2015, v. 10, n. 9, p. 1345, doi. 10.1002/biot.201400522
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- Article
Investigating Moorella thermoacetica metabolism with a genome-scale constraint-based metabolic model.
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- Integrative Biology, 2015, v. 7, n. 8, p. 869, doi. 10.1039/c5ib00095e
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- Article
Sub-optimal phenotypes of double-knockout mutants of Escherichia coli depend on the order of gene deletions.
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- Integrative Biology, 2015, v. 7, n. 8, p. 930, doi. 10.1039/c5ib00096c
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- Article
Metabolic engineering of a tyrosine-overproducing yeast platform using targeted metabolomics.
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- Microbial Cell Factories, 2015, v. 14, n. 1, p. 1, doi. 10.1186/s12934-015-0252-2
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- Article
Metabolic modeling of spatial heterogeneity of biofilms in microbial fuel cells reveals substrate limitations in electrical current generation.
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- Biotechnology Journal, 2014, v. 9, n. 10, p. 1350, doi. 10.1002/biot.201400068
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- Article
A defined co-culture of Geobacter sulfurreducens and Escherichia coli in a membrane-less microbial fuel cell.
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- Biotechnology & Bioengineering, 2014, v. 111, n. 4, p. 709, doi. 10.1002/bit.25137
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- Article
New Insights into <i>Dehalococcoides mccartyi</i> Metabolism from a Reconstructed Metabolic Network-Based Systems-Level Analysis of <i>D. mccartyi</i> Transcriptomes.
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- PLoS ONE, 2014, v. 9, n. 4, p. 1, doi. 10.1371/journal.pone.0094808
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- Article
Characterizing metabolic interactions in a clostridial co-culture for consolidated bioprocessing.
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- BMC Biotechnology, 2013, v. 13, n. 1, p. 1, doi. 10.1186/1472-6750-13-95
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- Article
Structure and activity of the NAD(P)<sup>+</sup>-dependent succinate semialdehyde dehydrogenase YneI from Salmonella typhimurium.
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- Proteins, 2013, v. 81, n. 6, p. 1031, doi. 10.1002/prot.24227
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- Article
Dynamic strain scanning optimization: an efficient strain design strategy for balanced yield, titer, and productivity. DySScO strategy for strain design.
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- BMC Biotechnology, 2013, v. 13, n. 1, p. 1, doi. 10.1186/1472-6750-13-8
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- Article
Design principles for generating robust gene expression patterns in dynamic engineered tissues.
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- Integrative Biology, 2013, v. 5, n. 3, p. 578, doi. 10.1039/c3ib20274g
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- Article
The design of long-term effective uranium bioremediation strategy using a community metabolic model.
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- Biotechnology & Bioengineering, 2012, v. 109, n. 10, p. 2475, doi. 10.1002/bit.24528
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- Article
Ensemble modeling of cancer metabolism.
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- Frontiers in Physiology, 2012, v. 3, p. 1, doi. 10.3389/fphys.2012.00135
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- Article
Comparative genomics of the white-rot fungi, Phanerochaete carnosa and P. chrysosporium, to elucidate the genetic basis of the distinct wood types they colonize.
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- BMC Genomics, 2012, v. 13, n. 1, p. 444, doi. 10.1186/1471-2164-13-444
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- Article
In situ to in silico and back: elucidating the physiology and ecology of Geobacter spp. using genome-scale modelling.
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- 2011
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- Correction notice
Genome-scale dynamic modeling of the competition between Rhodoferax and Geobacter in anoxic subsurface environments.
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- ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2011, v. 5, n. 2, p. 305, doi. 10.1038/ismej.2010.117
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- Article
Economics of membrane occupancy and respiro-fermentation.
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- Molecular Systems Biology, 2011, v. 7, n. 1, p. 1, doi. 10.1038/msb.2011.34
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- Article
In situ to in silico and back: elucidating the physiology and ecology of Geobacter spp. using genome-scale modelling.
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- Nature Reviews Microbiology, 2011, v. 9, n. 1, p. 39, doi. 10.1038/nrmicro2456
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- Article
Characterizing the Metabolism of Dehalococcoides with a Constraint-Based Model.
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- PLoS Computational Biology, 2010, v. 6, n. 8, p. 1, doi. 10.1371/journal.pcbi.1000887
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- Article
Genome-scale metabolic modeling of a clostridial co-culture for consolidated bioprocessing.
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- Biotechnology Journal, 2010, v. 5, n. 7, p. 726, doi. 10.1002/biot.201000159
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- Article
Characterization of proton production and consumption associated with microbial metabolism.
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- BMC Biotechnology, 2010, v. 10, p. 1, doi. 10.1186/1472-6750-10-2
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- Article