Elucidation of complexity and prediction of interactions in microbial communities by Cristal Zuñiga, Livia Zaramela, Karsten Zengler

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Genome-scale flux balance analysis reveals redox trade-offs in the metabolism of the thermoacidophile Methylacidiphilum fumariolicum under auto-, hetero-and methanotrophic conditio... by Alexis Saldivar, Patricia Ruiz-Ruiz, Sergio Revah, Cristal Zuñiga

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Advances in metabolic modeling of oleaginous microalgae by Juan D. Tibocha-Bonilla, Cristal Zuñiga, Rubén D. Godoy-Silva, Karsten Zengler

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Improving saliva shotgun metagenomics by chemical host DNA depletion by Clarisse A. Marotz, Jon G. Sanders, Cristal Zuniga, Livia S. Zaramela, Rob Knight, Karsten Zengler

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Genome-Scale Metabolic Modeling Enables In-Depth Understanding of Big Data by Anurag Passi, Juan D. Tibocha-Bonilla, Manish Kumar, Diego Tec-Campos, Karsten Zengler, Cristal Zuniga

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Predicting stress response and improved protein overproduction in Bacillus subtilis by Juan D. Tibocha-Bonilla, Cristal Zuñiga, Asama Lekbua, Colton Lloyd, Kevin Rychel, Katie Short, Karsten Zengler

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Multi-Objective Optimization of Microalgae Metabolism: An Evolutive Algorithm Based on FBA by Monica Fabiola Briones-Baez, Luciano Aguilera-Vazquez, Nelson Rangel-Valdez, Ana Lidia Martinez-Salazar, Cristal Zuñiga

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Optimization of nutrient utilization efficiency and productivity for algal cultures under light and dark cycles using genome-scale model process control by Chien-Ting Li, Richard Eng, Cristal Zuniga, Kai-Wen Huang, Yiqun Chen, Karsten Zengler, Michael J. Betenbaugh

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The genome-scale metabolic model for the purple non-sulfur bacterium Rhodopseudomonas palustris Bis A53 accurately predicts phenotypes under chemoheterotrophic, chemoautotrophic, p... by Diego Tec-Campos, Camila Posadas, Juan D Tibocha-Bonilla, Deepan Thiruppathy, Nathan Glonek, Cristal Zuñiga, Alejandro Zepeda, Karsten Zengler

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A computational knowledge-base elucidates the response of Staphylococcus aureus to different media types. by Yara Seif, Jonathan M Monk, Nathan Mih, Hannah Tsunemoto, Saugat Poudel, Cristal Zuniga, Jared Broddrick, Karsten Zengler, Bernhard O Palsson

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A model industrial workhorse: Bacillus subtilis strain 168 and its genome after a quarter of a century by Erhard Bremer, Alexandra Calteau, Antoine Danchin, Colin Harwood, John D. Helmann, Claudine Médigue, Bernhard O. Palsson, Agnieszka Sekowska, David Vallenet, Abril Zuniga, Cristal Zuniga

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Ten simple rules for writing and sharing computational analyses in Jupyter Notebooks. by Adam Rule, Amanda Birmingham, Cristal Zuniga, Ilkay Altintas, Shih-Cheng Huang, Rob Knight, Niema Moshiri, Mai H Nguyen, Sara Brin Rosenthal, Fernando Pérez, Peter W Rose

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