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2017 Journal Article Formulation, construction and analysis of kinetic models of metabolism: A review of modelling frameworksSaa, Pedro A. and Nielsen, Lars K. (2017). Formulation, construction and analysis of kinetic models of metabolism: A review of modelling frameworks. Biotechnology Advances, 35 (8), 981-1003. doi: 10.1016/j.biotechadv.2017.09.005 |
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2017 Journal Article Plant genome-scale reconstruction: from single cell to multi-tissue modelling and omics analysesGomes de Oliveira Dal'Molin, Cristiana and Nielsen, Lars Keld (2017). Plant genome-scale reconstruction: from single cell to multi-tissue modelling and omics analyses. Current Opinion in Biotechnology, 49, 42-48. doi: 10.1016/j.copbio.2017.07.009 |
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2017 Journal Article Overexpression of the regulatory subunit of glutamate-cysteine ligase enhances monoclonal antibody production in CHO cellsOrellana, Camila A., Marcellin, Esteban, Gray, Peter P. and Nielsen, Lars K. (2017). Overexpression of the regulatory subunit of glutamate-cysteine ligase enhances monoclonal antibody production in CHO cells. Biotechnology and Bioengineering, 114 (8), 1825-1836. doi: 10.1002/bit.26316 |
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2017 Journal Article Awakening sleeping beauty: production of propionic acid in Escherichia coli through the sbm operon requires the activity of a methylmalonyl-CoA epimeraseGonzalez-Garcia, Ricardo Axayacatl, McCubbin, Tim, Wille, Annalena, Plan, Manuel, Nielsen, Lars Keld and Marcellin, Esteban (2017). Awakening sleeping beauty: production of propionic acid in Escherichia coli through the sbm operon requires the activity of a methylmalonyl-CoA epimerase. Microbial Cell Factories, 16 (1) 121, 121. doi: 10.1186/s12934-017-0735-4 |
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2017 Journal Article Maintenance of ATP homeostasis triggers metabolic shifts in gas-fermenting acetogensValgepea, Kaspar, Lemgruber, Renato de Souza Pinto, Meaghan, Kieran, Palfreyman, Robin William, Abdalla, Tanus, Heijstra, Bjom Daniel, Behrendorff, James Bruce, Tappel, Ryan, Kopke, Michael, Simpson, Sean Dennis, Nielsen, Lars Keld and Marcellin, Esteban (2017). Maintenance of ATP homeostasis triggers metabolic shifts in gas-fermenting acetogens. Cell Systems, 4 (5), 505-515.e5. doi: 10.1016/j.cels.2017.04.008 |
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2017 Journal Article Microbial Propionic Acid ProductionGonzalez Garcia, Ricardo Axayacatl, McCubbin, Timothy, Navone, Laura, Stowers, Chris, Nielsen, Lars K. and Marcellin Saldana, Esteban Stefane (2017). Microbial Propionic Acid Production. Fermentation, 3 (2) 3020021, 1-20. doi: 10.3390/fermentation3020021 |
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2017 Journal Article Arginine deiminase pathway provides ATP and boosts growth of the gas-fermenting acetogen Clostridium autoethanogenumValgepea, Kaspar, Loi, Kim Q., Behrendorff, James B., Lemgruber, Renato de S. P., Plan, Manuel, Hodson, Mark P., Koepke, Michael, Nielsen, Lars K. and Marcellin, Esteban (2017). Arginine deiminase pathway provides ATP and boosts growth of the gas-fermenting acetogen Clostridium autoethanogenum. Metabolic Engineering, 41, 202-211. doi: 10.1016/j.ymben.2017.04.007 |
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2017 Journal Article Genome sequence of Propionibacterium acidipropionici ATCC 55737Luna-Flores, Carlos H., Nielsen, Lars K. and Marcellin, Estaban (2017). Genome sequence of Propionibacterium acidipropionici ATCC 55737. Genome Announcements, 4 (3) e00248-16. doi: 10.1128/genomeA.00248-16 |
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2017 Journal Article Coupling gene regulatory patterns to bioprocess conditions to optimize synthetic metabolic modules for improved sesquiterpene production in yeastPeng, Bingyin, Plan, Manuel R., Carpenter, Alexander, Nielsen, Lars K. and Vickers, Claudia E. (2017). Coupling gene regulatory patterns to bioprocess conditions to optimize synthetic metabolic modules for improved sesquiterpene production in yeast. Biotechnology for Biofuels, 10 (1) 43, 43. doi: 10.1186/s13068-017-0728-x |
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2017 Journal Article Improved production of propionic acid using genome shufflingLuna-Flores, Carlos H., Palfreyman, Robin W., Kromer, Jens O., Nielsen, Lars K. and Marcellin, Esteban (2017). Improved production of propionic acid using genome shuffling. Biotechnology Journal, 12 (2) 1600120, 1600120. doi: 10.1002/biot.201600120 |
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2017 Journal Article A squalene synthase protein degradation method for improved sesquiterpene production in Saccharomyces cerevisiaePeng, Bingyin, Plan, Manuel R., Chrysanthopoulos, Panagiotis, Hodson, Mark P., Nielsen, Lars K. and Vickers, Claudia E. (2017). A squalene synthase protein degradation method for improved sesquiterpene production in Saccharomyces cerevisiae. Metabolic Engineering, 39, 209-219. doi: 10.1016/j.ymben.2016.12.003 |
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2016 Journal Article The Saccharomyces cerevisiae pheromone-response is a metabolically active stationary phase for bio-productionWilliams, Thomas C., Peng, Bingyin, Vickers, Claudia E. and Nielsen, Lars K. (2016). The Saccharomyces cerevisiae pheromone-response is a metabolically active stationary phase for bio-production. Metabolic Engineering Communications, 3, 142-152. doi: 10.1016/j.meteno.2016.05.001 |
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2016 Journal Article A consensus genome-scale reconstruction of Chinese hamster ovary cell metabolismHefzi, Hooman, Ang, Kok Siong, Hanscho, Michael, Bordbar, Aarash, Ruckerbauer, David, Lakshmanan, Meiyappan, Orellana, Camila A., Baycin-Hizal, Deniz, Huang, Yingxiang, Ley, Daniel, Martinez, Veronica S., Kyriakopoulos, Sarantos, Jimenez, Natalia E., Zielinski, Daniel C., Quek, Lake-Ee, Wulff, Tune, Arnsdorf, Johnny, Li, Shangzhong, Lee, Jae Seong, Paglia, Giuseppe, Loira, Nicolas, Spahn, Philipp N., Pedersen, Lasse E., Gutierrez, Jahir M., King, Zachary A., Lund, Anne Mathilde, Nagarajan, Harish, Thomas, Alex, Abdel-Haleem, Alyaa M. ... Lewis, Nathan E. (2016). A consensus genome-scale reconstruction of Chinese hamster ovary cell metabolism. Cell Systems, 3 (5), 434-443.e8. doi: 10.1016/j.cels.2016.10.020 |
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2016 Journal Article Deletion of the hypothetical protein SCO2127 of Streptomyces coelicolor allowed identification of a new regulator of actinorhodin productionTierrafría, Víctor H. , Licona-Cassani, Cuauhtemoc, Maldonado-Carmona, Nidia, Romero-Rodríguez, Alba, Centeno-Leija, Sara, Marcellin, Esteban, Rodríguez-Sanoja, Romina, Ruiz-Villafan, Beatriz, Nielsen, Lars K. and Sánchez, Sergio (2016). Deletion of the hypothetical protein SCO2127 of Streptomyces coelicolor allowed identification of a new regulator of actinorhodin production. Applied Microbiology and Biotechnology, 100 (21), 9229-9237. doi: 10.1007/s00253-016-7811-2 |
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2016 Journal Article Tetanus toxin production is triggered by the transition from amino acid consumption to peptidesLicona-Cassani, Cuauhtemoc, Steen, Jennifer A., Zaragoza, Nicolas E., Moonen, Glenn, Moutafis, George, Hodson, Mark P., Power, John, Nielsen, Lars K. and Marcellin, Esteban (2016). Tetanus toxin production is triggered by the transition from amino acid consumption to peptides. Anaerobe, 41, 113-124. doi: 10.1016/j.anaerobe.2016.07.006 |
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2016 Journal Article In vitro production of baculoviruses: identifying host and virus genes associated with high productivityNguyen, Quan, Tran, Trinh Tb, Chan, Leslie C. L., Nielsen, Lars K. and Reid, Steven (2016). In vitro production of baculoviruses: identifying host and virus genes associated with high productivity. Applied Microbiology and Biotechnology, 100 (21), 1-15. doi: 10.1007/s00253-016-7774-3 |
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2016 Journal Article Representing genetic variation with synthetic DNA standardsDeveson, Ira W., Chen, Wendy Y., Wong, Ted, Hardwick, Simon A., Andersen, Stacey B., Nielsen, Lars K., Mattick, John S. and Mercer, Tim R. (2016). Representing genetic variation with synthetic DNA standards. Nature Methods, 13 (9), 784-791. doi: 10.1038/nmeth.3957 |
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2016 Journal Article Spliced synthetic genes as internal controls in RNA sequencing experimentsHardwick, Simon A., Chen, Wendy Y., Wong, Ted, Deveson, Ira W., Blackburn, James, Andersen, Stacey B., Nielsen, Lars K., Mattick, John S. and Mercer, Tim R. (2016). Spliced synthetic genes as internal controls in RNA sequencing experiments. Nature Methods, 13 (9), 792-798. doi: 10.1038/nmeth.3958 |
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2016 Journal Article Fast-SNP: a fast matrix pre-processing algorithm for efficient loopless flux optimization of metabolic modelsHiguera, Pedro Saa and Nielsen, Lars K. (2016). Fast-SNP: a fast matrix pre-processing algorithm for efficient loopless flux optimization of metabolic models. Bioinformatics, 32 (24), 3807-3814. doi: 10.1093/bioinformatics/btw555 |
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2016 Journal Article Metabolic reconstruction of Setaria italica: a systems biology approach for integrating tissue-specific omics and pathway analysis of bioenergy grassesde Oliveira Dal'Molin, Cristiana Gomes, Orellana, Camila, Gebbie, Leigh, Steen, Jennifer, Hodson, Mark, Plan, Manuel, Chrysanthopoulos, Panagiotis, Macqualter, Richard, Palfreyman, Robin W. and Nielsen, Lars K. (2016). Metabolic reconstruction of Setaria italica: a systems biology approach for integrating tissue-specific omics and pathway analysis of bioenergy grasses. Frontiers in Plant Science, 7 (1138) 1138, 1-18. doi: 10.3389/fpls.2016.01138 |
