Not logged inBioSimulators: a central registry of simulation engines and services for recommending specific tools
Shaikh, Bilal; Smith, Lucian P.; Vasilescu, Dan; Marupilla, Gnaneswara; Wilson, Michael; Agmon, Eran; Agnew, Henry; Andrews, Steven S.; Anwar, Azraf; Beber, Moritz E.; Bergmann, Frank T.; Brooks, David; Brusch, Lutz; Calzone, Laurence; Choi, Kiri; Cooper, Joshua; Detloff, John; Drawert, Brian; Dumontier, Michel; Ermentrout, G. Bard; Faeder, James R.; Freiburger, Andrew P.; Frohlich, Fabian; Funahashi, Akira; Garny, Alan; Gennari, John H.; Gleeson, Padraig; Goelzer, Anne; Haiman, Zachary; Hasenauer, Jan; Hellerstein, Joseph L.; Hermjakob, Henning; Hoops, Stefan; Ison, Jon C.; Jahn, Diego; Jakubowski, Henry, V; Jordan, Ryann; Kalas, Matus; Koenig, Matthias; Liebermeister, Wolfram; Sheriff, Rahuman S. Malik; Mandal, Synchon; McDougal, Robert; Medley, J. Kyle; Mendes, Pedro; Mueller, Robert; Myers, Chris J.; Naldi, Aurelien; Nguyen, Tung V. N.; Nickerson, David P.; Olivier, Brett G.; Patoliya, Drashti; Pauleve, Loic; Petzold, Linda R.; Priya, Ankita; Rampadarath, Anand K.; Rohwer, Johann M.; Saglam, Ali S.; Singh, Dilawar; Sinha, Ankur; Snoep, Jacky; Sorby, Hugh; Spangler, Ryan; Starruss, Joern; Thomas, Payton J.; van Niekerk, David; Weindl, Daniel; Zhang, Fengkai; Zhukova, Anna; Goldberg, Arthur P.; Schaff, James C.; Blinov, Michael L.; Sauro, Herbert M.; Moraru, Ion I.; Karr, Jonathan R.
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SaveLong-Term Effects of a Web-Based Low-FODMAP Diet Versus Probiotic Treatment for Irritable Bowel Syndrome, Including Shotgun Analyses of Microbiota: Randomized, Double-Crossover Clinical Trial
Ankersen, Dorit Vedel; Weimers, Petra; Bennedsen, Mette; Haaber, Anne Birgitte; Fjordside, Eva Lund; Beber, Moritz Emanuel; Lieven, Christian; Saboori, Sanaz; Vad, Nicolai; Rannem, Terje; Marker, Dorte; Paridaens, Kristine; Frahm, Suzanne; Jensen, Lisbeth; Hansen, Malte Rosager; Burisch, Johan; Munkholm, Pia
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SaveThe ModelSEED Biochemistry Database for the integration of metabolic annotations and the reconstruction, comparison and analysis of metabolic models for plants, fungi and microbes (vol 49, pg D575, 2021)
Seaver, Samuel M. D.; Liu, Filipe; Zhang, Qizhi; Jeffryes, James; Faria, Jose P.; Edirisinghe, Janaka N.; Mundy, Michael; Chia, Nicholas; Noor, Elad; Beber, Moritz E.; Best, Aaron A.; DeJongh, Matthew; Kimbrel, Jeffrey A.; D'haeseleer, Patrik; McCorkle, Sean R.; Bolton, Jay R.; Pearson, Erik; Canon, Shane; Wood-Charlson, Elisha M.; Cottingham, Robert W.; Arkin, Adam P.; Henry, Christopher S.
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SaveA consensus S. cerevisiae metabolic model Yeast8 and its ecosystem for comprehensively probing cellular metabolism (vol 10, 3586, 2019)
Lu, Hongzhong; Li, Feiran; Sanchez, Benjamin J.; Zhu, Zhengming; Li, Gang; Domenzain, Ivan; Marcisauskas, Simonas; Anton, Petre Mihail; Lappa, Dimitra; Lieven, Christian; Beber, Moritz Emanuel; Sonnenschein, Nikolaus; Kerkhoven, Eduard J.; Nielsen, Jens
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SaveThe ModelSEED Biochemistry Database for the integration of metabolic annotations and the reconstruction, comparison and analysis of metabolic models for plants, fungi and microbes
Seaver, Samuel M. D.; Liu, Filipe; Zhang, Qizhi; Jeffryes, James; Faria, Jose P.; Edirisinghe, Janaka N.; Mundy, Michael; Chia, Nicholas; Noor, Elad; Beber, Moritz E.; Best, Aaron A.; DeJongh, Matthew; Kimbrel, Jeffrey A.; D'haeseleer, Patrik; McCorkle, Sean R.; Bolton, Jay R.; Pearson, Erik; Canon, Shane; Wood-Charlson, Elisha M.; Cottingham, Robert W.; Arkin, Adam P.; Henry, Christopher S.
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SaveMEMOTE for standardized genome-scale metabolic model testing (vol 38, pg 272, 2020)
Lieven, Christian; Beber, Moritz E.; Olivier, Brett G.; Bergmann, Frank T.; Ataman, Meric; Babaei, Parizad; Bartell, Jennifer A.; Blank, Lars M.; Chauhan, Siddharth; Correia, Kevin; Diener, Christian; Draeger, Andreas; Ebert, Birgitta E.; Edirisinghe, Janaka N.; Faria, Jose P.; Feist, Adam M.; Fengos, Georgios; Fleming, Ronan M. T.; Garcia-Jimenez, Beatriz; Hatzimanikatis, Vassily; van Helvoirt, Wout; Henry, Christopher S.; Hermjakob, Henning; Herrgard, Markus J.; Kaafarani, Ali; Kim, Hyun Uk; King, Zachary; Klamt, Steffen; Klipp, Edda; Koehorst, Jasper J.; Koenig, Matthias; Lakshmanan, Meiyappan; Lee, Dong-Yup; Lee, Sang Yup; Lee, Sunjae; Lewis, Nathan E.; Liu, Filipe; Ma, Hongwu; Machado, Daniel; Mahadevan, Radhakrishnan; Maia, Paulo; Mardinoglu, Adil; Medlock, Gregory L.; Monk, Jonathan M.; Nielsen, Jens; Nielsen, Lars Keld; Nogales, Juan; Nookaew, Intawat; Palsson, Bernhard O.; Papin, Jason A.; Patil, Kiran R.; Poolman, Mark; Price, Nathan D.; Resendis-Antonio, Osbaldo; Richelle, Anne; Rocha, Isabel; Sanchez, Benjamin J.; Schaap, Peter J.; Sheriff, Rahuman S. Malik; Shoaie, Saeed; Sonnenschein, Nikolaus; Teusink, Bas; Vilaca, Paulo; Vik, Jon Olav; Wodke, Judith A. H.; Xavier, Joana C.; Yuan, Qianqian; Zakhartsev, Maksim; Zhang, Cheng
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SaveMEMOTE for standardized genome-scale metabolic model testing
Lieven, Christian; Beber, Moritz E.; Olivier, Brett G.; Bergmann, Frank T.; Ataman, Meric; Babaei, Parizad; Bartell, Jennifer A.; Blank, Lars M.; Chauhan, Siddharth; Correia, Kevin; Diener, Christian; Draeger, Andreas; Ebert, Birgitta E.; Edirisinghe, Janaka N.; Faria, Jose P.; Feist, Adam M.; Fengos, Georgios; Fleming, Ronan M. T.; Garcia-Jimenez, Beatriz; Hatzimanikatis, Vassily; van Helvoirt, Wout; Henry, Christopher S.; Hermjakob, Henning; Herrgard, Markus J.; Kaafarani, Ali; Kim, Hyun Uk; King, Zachary; Klamt, Steffen; Klipp, Edda; Koehorst, Jasper J.; Koenig, Matthias; Lakshmanan, Meiyappan; Lee, Dong-Yup; Lee, Sang Yup; Lee, Sunjae; Lewis, Nathan E.; Liu, Filipe; Ma, Hongwu; Machado, Daniel; Mahadevan, Radhakrishnan; Maia, Paulo; Mardinoglu, Adil; Medlock, Gregory L.; Monk, Jonathan M.; Nielsen, Jens; Nielsen, Lars Keld; Nogales, Juan; Nookaew, Intawat; Palsson, Bernhard O.; Papin, Jason A.; Patil, Kiran R.; Poolman, Mark; Price, Nathan D.; Resendis-Antonio, Osbaldo; Richelle, Anne; Rocha, Isabel; Sanchez, Benjamin J.; Schaap, Peter J.; Malik Sheriff, Rahuman S.; Shoaie, Saeed; Sonnenschein, Nikolaus; Teusink, Bas; Vilaca, Paulo; Vik, Jon Olav; Wodke, Judith A. H.; Xavier, Joana C.; Yuan, Qianqian; Zakhartsev, Maksim; Zhang, Cheng
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SaveA consensus S. cerevisiae metabolic model Yeast8 and its ecosystem for comprehensively probing cellular metabolism
Lu, Hongzhong; Li, Feiran; Sanchez, Benjamin J.; Zhu, Zhengming; Li, Gang; Domenzain, Ivan; Marcisauskas, Simonas; Anton, Petre Mihail; Lappa, Dimitra; Lieven, Christian; Beber, Moritz Emanuel; Sonnenschein, Nikolaus; Kerkhoven, Eduard J.; Nielsen, Jens
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SaveCameo: A Python Library for Computer Aided Metabolic Engineering and Optimization of Cell Factories
Cardoso, Joao G. R.; Jensen, Kristian; Lieven, Christian; Hansen, Anne Sofie Laerke; Galkina, Svetlana; Beber, Moritz; Ozdemir, Emre; Herrgard, Markus J.; Redestig, Henning; Sonnenschein, Nikolaus
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