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In silico Design for Systems-Based Metabolic Engineering for the Bioconversion of Valuable Compounds From Industrial By-Products.
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- Frontiers in Genetics, 2021, v. 11, p. N.PAG, doi. 10.3389/fgene.2021.633073
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- Article
Modeling multi-scale resource selection for bear rubs in northwestern Montana.
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- Ursus, 2015, v. 26, n. 1, p. 28, doi. 10.2192/URSUS-D-14-00026.1
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- Article
In silico approaches to study mass and energy flows in microbial consortia: a syntrophic case study.
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- BMC Systems Biology, 2009, v. 3, p. 1, doi. 10.1186/1752-0509-3-114
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- Publication type:
- Article
Use of sodium bicarbonate to stimulate triacylglycerol accumulation in the chlorophyte Scenedesmus sp. and the diatom Phaeodactylum tricornutum.
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- Journal of Applied Phycology, 2012, v. 24, n. 5, p. 1311, doi. 10.1007/s10811-011-9782-0
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- Article
Laser desorption VUV postionization MS imaging of a cocultured biofilm.
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- Analytical & Bioanalytical Chemistry, 2013, v. 405, n. 22, p. 6969, doi. 10.1007/s00216-012-6454-0
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- Article
Fundamental Escherichia coli biochemical pathways for biomass and energy production: creation of overall flux states.
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- Biotechnology & Bioengineering, 2004, v. 86, n. 2, p. 149, doi. 10.1002/bit.20044
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- Article
Fundamental Escherichia coli biochemical pathways for biomass and energy production: Identification of reactions.
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- Biotechnology & Bioengineering, 2004, v. 85, n. 1, p. 1, doi. 10.1002/bit.10812
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- Article
Metabolic pathway analysis of a recombinant yeast for rational strain development.
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- Biotechnology & Bioengineering, 2002, v. 79, n. 2, p. 121, doi. 10.1002/bit.10305
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- Publication type:
- Article
Physiological and molecular analysis of carbon source supplementation and pH stress-induced lipid accumulation in the marine diatom Phaeodactylum tricornutum.
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- Applied Microbiology & Biotechnology, 2013, v. 97, n. 8, p. 3625, doi. 10.1007/s00253-013-4747-7
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- Article
Metabolic pathway structures for recombinant protein synthesis in Escherichia coli.
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- Applied Microbiology & Biotechnology, 2005, v. 68, n. 6, p. 737, doi. 10.1007/s00253-005-1920-7
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- Article
RESULTS OF THE INDIANA FOREST ALLIANCE ECOBLITZ AT MORGAN-MONROE / YELLOWWOOD STATE FOREST IN INDIANA.
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- Proceedings of the Indiana Academy of Science, 2019, v. 128, n. 2, p. 153
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- Article
RESULTS OF THE 2014 EAGLE MARSH BIODIVERSITY SURVEY, ALLEN COUNTY, INDIANA.
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- Proceedings of the Indiana Academy of Science, 2016, v. 125, n. 1, p. 40
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- Article
Laser desorption 7.87 eV postionization mass spectrometry of antibiotics in Staphylococcus epidermidis bacterial biofilms.
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- Proteomics, 2008, v. 8, n. 18, p. 3816, doi. 10.1002/pmic.200701142
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- Article
Carbon chain length of biofuel- and flavor-relevant volatile organic compounds produced by lignocellulolytic fungal endophytes changes with culture temperature.
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- Mycoscience, 2017, v. 58, n. 5, p. 338, doi. 10.1016/j.myc.2017.03.005
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- Article
Spatially resolved analysis of Pseudomonas aeruginosa biofilm proteomes measured by laser ablation sample transfer.
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- PLoS ONE, 2021, v. 16, n. 7, p. 1, doi. 10.1371/journal.pone.0250911
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- Article
Metabolic modeling of a chronic wound biofilm consortium predicts spatial partitioning of bacterial species.
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- BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0334-8
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- Publication type:
- Article
Pseudomonad reverse carbon catabolite repression, interspecies metabolite exchange, and consortial division of labor.
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- Cellular & Molecular Life Sciences, 2020, v. 77, n. 3, p. 395, doi. 10.1007/s00018-019-03377-x
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- Article
Answer Set Programming for Computing Constraints-Based Elementary Flux Modes: Application to Escherichia coli Core Metabolism.
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- Processes, 2020, v. 8, n. 12, p. 1649, doi. 10.3390/pr8121649
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- Article
Special Issue: Methods in Computational Biology.
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- 2019
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- Publication type:
- Editorial
Measuring Cellular Biomass Composition for Computational Biology Applications.
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- Processes, 2018, v. 6, n. 5, p. 38, doi. 10.3390/pr6050038
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- Publication type:
- Article
Stoichiometric Network Analysis of Cyanobacterial Acclimation to Photosynthesis-Associated Stresses Identifies Heterotrophic Niches.
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- Processes, 2017, v. 5, n. 2, p. 32, doi. 10.3390/pr5020032
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- Publication type:
- Article
Photorespiration and Rate Synchronization in a Phototroph-Heterotroph Microbial Consortium.
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- Processes, 2017, v. 5, n. 1, p. 11, doi. 10.3390/pr5010011
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- Publication type:
- Article
Stoichiometric modelling of assimilatory and dissimilatory biomass utilisation in a microbial community.
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- Environmental Microbiology, 2016, v. 18, n. 12, p. 4946, doi. 10.1111/1462-2920.13444
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- Article
In situ analysis of oxygen consumption and diffusive transport in high-temperature acidic iron-oxide microbial mats.
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- Environmental Microbiology, 2013, v. 15, n. 8, p. 2360, doi. 10.1111/1462-2920.12109
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- Article
Potential role of multiple carbon fixation pathways during lipid accumulation in Phaeodactylum tricornutum.
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- Biotechnology for Biofuels, 2012, v. 5, n. 1, p. 40, doi. 10.1186/1754-6834-5-40
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- Article
Pseudomonas aeruginosa reverse diauxie is a multidimensional, optimized, resource utilization strategy.
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- Scientific Reports, 2021, v. 10, n. 1, p. 1, doi. 10.1038/s41598-020-80522-8
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- Publication type:
- Article
Combining Targeted Metabolomic Data with a Model of Glucose Metabolism: Toward Progress in Chondrocyte Mechanotransduction.
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- PLoS ONE, 2017, v. 12, n. 1, p. 1, doi. 10.1371/journal.pone.0168326
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- Publication type:
- Article
Effects of Spatial Localization on Microbial Consortia Growth.
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- PLoS ONE, 2017, v. 12, n. 1, p. 1, doi. 10.1371/journal.pone.0168592
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- Publication type:
- Article
Competitive resource allocation to metabolic pathways contributes to overflow metabolisms and emergent properties in cross-feeding microbial consortia.
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- Biochemical Society Transactions, 2018, v. 46, n. 2, p. 269, doi. 10.1042/BST20170242
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- Article
Modelling metabolism of the diatom Phaeodactylum tricornutum.
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- Biochemical Society Transactions, 2015, v. 43, n. 6, p. 1182, doi. 10.1042/BST20150152
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- Article
Integrated molecular, physiological and in silico characterization of two Halomonas isolates from industrial brine.
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- Extremophiles, 2016, v. 20, n. 3, p. 261, doi. 10.1007/s00792-015-0806-6
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- Article
Artificial consortium demonstrates emergent properties of enhanced cellulosic-sugar degradation and biofuel synthesis.
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- NPJ Biofilms & Microbiomes, 2020, v. 6, n. 1, p. N.PAG, doi. 10.1038/s41522-020-00170-8
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- Publication type:
- Article
Reverse diauxie phenotype in Pseudomonas aeruginosa biofilm revealed by exometabolomics and label-free proteomics.
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- NPJ Biofilms & Microbiomes, 2019, v. 5, n. 1, p. N.PAG, doi. 10.1038/s41522-019-0104-7
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- Publication type:
- Article
In Silico Analysis of Functionalized Hydrocarbon Production Using Ehrlich Pathway and Fatty Acid Derivatives in an Endophytic Fungus.
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- Journal of Fungi, 2021, v. 7, n. 6, p. 1, doi. 10.3390/jof7060435
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- Article
In a Quest for Engineering Acidophiles for Biomining Applications: Challenges and Opportunities.
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- Genes, 2018, v. 9, n. 2, p. 116, doi. 10.3390/genes9020116
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- Article
In Silico Metabolic Design of Two‐Strain Biofilm Systems Predicts Enhanced Biomass Production and Biochemical Synthesis.
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- Biotechnology Journal, 2019, v. 14, n. 7, p. N.PAG, doi. 10.1002/biot.201800511
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- Article
Complete enumeration of elementary flux modes through scalable demand-based subnetwork definition.
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- Bioinformatics, 2014, v. 30, n. 11, p. 1569, doi. 10.1093/bioinformatics/btu021
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- Article
Decomposition of complex microbial behaviors into resource-based stress responses.
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- Bioinformatics, 2009, v. 25, n. 1, p. 90, doi. 10.1093/bioinformatics/btn589
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- Publication type:
- Article
Logic programming-based Minimal Cut Sets reveal consortium-level therapeutic targets for chronic wound infections.
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- NPJ Systems Biology & Applications, 2024, v. 10, n. 1, p. 1, doi. 10.1038/s41540-024-00360-6
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- Publication type:
- Article
Limitation by a shared mutualist promotes coexistence of multiple competing partners.
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- Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-20922-0
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- Article
Robustness analysis of culturing perturbations on Escherichia coli colony biofilm beta-lactam and aminoglycoside antibiotic tolerance.
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- BMC Microbiology, 2010, v. 10, p. 185, doi. 10.1186/1471-2180-10-185
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- Publication type:
- Article
Multiscale analysis of autotroph-heterotroph interactions in a high-temperature microbial community.
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- PLoS Computational Biology, 2018, v. 14, n. 9, p. 1, doi. 10.1371/journal.pcbi.1006431
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- Publication type:
- Article