Metabolic network analysis reveals microbial community interactions in anammox granules von Lawson, Christopher E., Wu, Sha, Bhattacharjee, Ananda S., Hamilton, Joshua J., McMahon, Katherine D., Goel, Ramesh, Noguera, Daniel R.

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Design of synthetic human gut microbiome assembly and butyrate production von Clark, Ryan L., Connors, Bryce M., Stevenson, David M., Hromada, Susan E., Hamilton, Joshua J., Amador-Noguez, Daniel, Venturelli, Ophelia S.

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Quantitative Assessment of Thermodynamic Constraints on the Solution Space of Genome-Scale Metabolic Models von Hamilton, Joshua J., Dwivedi, Vivek, Reed, Jennifer L.

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Metatranscriptomic and Thermodynamic Insights into Medium-Chain Fatty Acid Production Using an Anaerobic Microbiome von Scarborough, Matthew J, Lawson, Christopher E, Hamilton, Joshua J, Donohue, Timothy J, Noguera, Daniel R

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Thermodynamics and H2 Transfer in a Methanogenic, Syntrophic Community von Hamilton, Joshua J, Calixto Contreras, Montserrat, Reed, Jennifer L

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Identification of functional differences in metabolic networks using comparative genomics and constraint-based models von Hamilton, Joshua J, Reed, Jennifer L

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TaxAss: Leveraging a Custom Freshwater Database Achieves Fine-Scale Taxonomic Resolution von Rohwer, Robin R, Hamilton, Joshua J, Newton, Ryan J, McMahon, Katherine D

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Genome-scale reconstruction of metabolic networks of Lactobacillus casei ATCC 334 and 12A von Vinay-Lara, Elena, Hamilton, Joshua J, Stahl, Buffy, Broadbent, Jeff R, Reed, Jennifer L, Steele, James L

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Diagnosing and Predicting Mixed-Culture Fermentations with Unicellular and Guild-Based Metabolic Models von Scarborough, Matthew J., Hamilton, Joshua J., Erb, Elizabeth A., Donohue, Timothy J., Noguera, Daniel R.

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Polysaccharide utilization loci in Bacteroides determine population fitness and community-level interactions von Feng, Jun, Qian, Yili, Zhou, Zhichao, Ertmer, Sarah, Vivas, Eugenio I., Lan, Freeman, Hamilton, Joshua J., Rey, Federico E., Anantharaman, Karthik, Venturelli, Ophelia S.

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Model Communities Hint at Promiscuous Metabolic Linkages between Ubiquitous Free-Living Freshwater Bacteria von Garcia, Sarahi L, Buck, Moritz, Hamilton, Joshua J, Wurzbacher, Christian, Grossart, Hans-Peter, McMahon, Katherine D, Eiler, Alexander

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Software platforms to facilitate reconstructing genome-scale metabolic networks von Hamilton, Joshua J., Reed, Jennifer L.

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Metabolic Network Analysis and Metatranscriptomics Reveal Auxotrophies and Nutrient Sources of the Cosmopolitan Freshwater Microbial Lineage acI von Hamilton, Joshua J, Garcia, Sarahi L, Brown, Brittany S, Oyserman, Ben O, Moya-Flores, Francisco, Bertilsson, Stefan, Malmstrom, Rex R, Forest, Katrina T, McMahon, Katherine D

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acI Actinobacteria Assemble a Functional Actinorhodopsin with Natively Synthesized Retinal von Dwulit-Smith, Jeffrey R, Hamilton, Joshua J, Stevenson, David M, He, Shaomei, Oyserman, Ben O, Moya-Flores, Francisco, Garcia, Sarahi L, Amador-Noguez, Daniel, McMahon, Katherine D, Forest, Katrina T

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Understanding and Engineering Distributed Biochemical Pathways in Microbial Communities von Cao, Xinyun, Hamilton, Joshua J, Venturelli, Ophelia S

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Thermodynamics and H 2 Transfer in a Methanogenic, Syntrophic Community von Hamilton, Joshua, Contreras, Montserrat, Reed, Jennifer

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Thermodynamics and H 2 Transfer in a Methanogenic, Syntrophic Community: e1004364 von Hamilton, Joshua J, Contreras, Montserrat Calixto, Reed, Jennifer L

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Diagnosing and Predicting Mixed-Culture Fermentations with Unicellular and Guild-Based Metabolic Models von Scarborough, Matthew J., Hamilton, Joshua J., Erb, Elizabeth A., Donohue, Timothy J., Noguera, Daniel R., Rust, Michael

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Metatranscriptomic and Thermodynamic Insights into Medium-Chain Fatty Acid Production Using an Anaerobic Microbiome von Matthew J. Scarborough, Christopher E. Lawson, Joshua J. Hamilton, Timothy J. Donohue, Daniel R. Noguera

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Genome -Scale Reconstruction of Metabolic Networks of Lactobacillus casei ATCC 334 and 12A: e110785 von Vinay-Lara, Elena, Hamilton, Joshua J, Stahl, Buffy, Broadbent, Jeff R, Reed, Jennifer L, Steele, James L

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