Nathan E. Lewis

ORCID

Publication Activity (10 Years)

Years Active: 2012-2022
Publications (10 Years): 12

Top Venues

University of California, San Diego, USA (PHD)

Education History

University of California, San Diego, USA

PHD

Publications

Chintan J. Joshi, Song-Min Schinn, Anne Richelle, Isaac Shamie, Eyleen J. O'Rourke, Nathan E. Lewis
Correction: StanDep: Capturing transcriptomic variability improves context-specific metabolic models. PLoS Comput. Biol. 18 (1) (2022)
Dustin Kenefake, Erick Armingol, Nathan E. Lewis, Efstratios N. Pistikopoulos
An improved algorithm for flux variability analysis. BMC Bioinform. 23 (1) (2022)
Erick Armingol, Abbas Ghaddar, Chintan J. Joshi, Hratch Baghdassarian, Isaac Shamie, Jason Chan, Hsuan-Lin Her, Samuel Berhanu, Anushka Dar, Fabiola Rodriguez-Armstrong, Olivia Yang, Eyleen J. O'Rourke, Nathan E. Lewis
Inferring a spatial code of cell-cell interactions across a whole animal body. PLoS Comput. Biol. 18 (11) (2022)
Chintan J. Joshi, Wenfan Ke, Anna Drangowska-Way, Eyleen J. O'Rourke, Nathan E. Lewis
What are housekeeping genes? PLoS Comput. Biol. 18 (7) (2022)
Chintan J. Joshi, Song-Min Schinn, Anne Richelle, Isaac Shamie, Eyleen J. O'Rourke, Nathan E. Lewis
StanDep: Capturing transcriptomic variability improves context-specific metabolic models. PLoS Comput. Biol. 16 (5) (2020)
Dongdong Lin, Hima B. Yalamanchili, Xinmin Zhang, Nathan E. Lewis, Christina S. Alves, Joost Groot, Johnny Arnsdorf, Sara P. Bjørn, Tune Wulff, Bjørn G. Voldborg, Yizhou Zhou, Baohong Zhang
CHOmics: A web-based tool for multi-omics data analysis and interactive visualization in CHO cell lines. PLoS Comput. Biol. 16 (12) (2020)
Anne Richelle, Austin W. T. Chiang, Chih-Chung Kuo, Nathan E. Lewis
Increasing consensus of context-specific metabolic models by integrating data-inferred cell functions. PLoS Comput. Biol. 15 (4) (2019)
Anne Richelle, Chintan J. Joshi, Nathan E. Lewis
Assessing key decisions for transcriptomic data integration in biochemical networks. PLoS Comput. Biol. 15 (7) (2019)
Alyaa M. Abdel-Haleem, Hooman Hefzi, Katsuhiko Mineta, Xin Gao, Takashi Gojobori, Bernhard O. Palsson, Nathan E. Lewis, Neema Jamshidi
Functional interrogation of Plasmodium genus metabolism identifies species- and stage-specific differences in nutrient essentiality and drug targeting. PLoS Comput. Biol. 14 (1) (2018)
Zachary A. King, Justin Lu, Andreas Dräger, Philip Miller, Stephen Federowicz, Joshua A. Lerman, Ali Ebrahim, Bernhard O. Palsson, Nathan E. Lewis
BiGG Models: A platform for integrating, standardizing and sharing genome-scale models. Nucleic Acids Res. 44 (Database-Issue) (2016)
Nicolas Rodriguez, Alex Thomas, Leandro H. Watanabe, Ibrahim Y. Vazirabad, Victor Kofia, Harold F. Gómez, Florian Mittag, Jakob Matthes, Jan Rudolph, Finja Wrzodek, Eugen Netz, Alexander Diamantikos, Johannes Eichner, Roland Keller, Clemens Wrzodek, Sebastian Fröhlich, Nathan E. Lewis, Chris J. Myers, Nicolas Le Novère, Bernhard Ø. Palsson, Michael Hucka, Andreas Dräger
JSBML 1.0: providing a smorgasbord of options to encode systems biology models. Bioinform. 31 (20) (2015)
Zachary A. King, Andreas Dräger, Ali Ebrahim, Nikolaus Sonnenschein, Nathan E. Lewis, Bernhard O. Palsson
Escher: A Web Application for Building, Sharing, and Embedding Data-Rich Visualizations of Biological Pathways. PLoS Comput. Biol. 11 (8) (2015)
Elad Noor, Nathan E. Lewis, Ron Milo
A proof for loop-law constraints in stoichiometric metabolic networks. BMC Syst. Biol. 6 (2012)

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Publication Activity (10 Years)

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Nathan E. Lewis