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Journal Articles
- 2023
[j11]Christopher J. Skalnik
, Sean Y. Cheah, Mica Y. Yang, Mattheus B. Wolff, Ryan K. Spangler, Lee Talman, Jerry H. Morrison, Shayn M. Peirce, Eran Agmon, Markus W. Covert:
Whole-cell modeling of E. coli colonies enables quantification of single-cell heterogeneity in antibiotic responses. PLoS Comput. Biol. 19(6) (2023)- 2022
- [j10]Eran Agmon, Ryan K. Spangler, Christopher J. Skalnik, William Poole, Shayn M. Peirce, Jerry H. Morrison, Markus W. Covert:
Vivarium: an interface and engine for integrative multiscale modeling in computational biology. Bioinform. 38(7): 1972-1979 (2022) - 2016
- [j9]David A. Van Valen, Takamasa Kudo, Keara M. Lane, Derek N. Macklin, Nicolas T. Quach, Mialy M. DeFelice, Inbal Maayan, Yu Tanouchi, Euan A. Ashley, Markus W. Covert:
Deep Learning Automates the Quantitative Analysis of Individual Cells in Live-Cell Imaging Experiments. PLoS Comput. Biol. 12(11) (2016) - 2015
- [j8]Jonathan R. Karr, Harendra Guturu, Edward Y. Chen, Stuart L. Blair, Jonathan M. Irish, Nikesh Kotecha, Markus W. Covert:
NetworkPainter: dynamic intracellular pathway animation in Cytobank. BMC Bioinform. 16: 172:1-172:7 (2015) - [j7]Jonathan R. Karr, Alex H. Williams, Jeremy D. Zucker, Andreas Raue, Bernhard Steiert, Jens Timmer, Clemens Kreutz, Simon Wilkinson, Brandon A. Allgood, Brian M. Bot, Bruce R. Hoff, Michael R. Kellen, Markus W. Covert, Gustavo A. Stolovitzky, Pablo Meyer:
Summary of the DREAM8 Parameter Estimation Challenge: Toward Parameter Identification for Whole-Cell Models. PLoS Comput. Biol. 11(5) (2015) - 2014
- [j6]Jonathan R. Karr, Nolan C. Phillips, Markus W. Covert:
WholeCellSimDB: a hybrid relational/HDF database for whole-cell model predictions. Database J. Biol. Databases Curation 2014 (2014) - 2013
- [j5]Ruby Lee, Jonathan R. Karr, Markus W. Covert:
WholeCellViz: data visualization for whole-cell models. BMC Bioinform. 14: 253 (2013) - [j4]Jonathan R. Karr, Jayodita C. Sanghvi, Derek N. Macklin, Abhishek Arora, Markus W. Covert:
WholeCellKB: model organism databases for comprehensive whole-cell models. Nucleic Acids Res. 41(Database-Issue): 787-792 (2013) - 2012
- [j3]Elsa W. Birch, Nicholas A. Ruggero, Markus W. Covert:
Determining Host Metabolic Limitations on Viral Replication via Integrated Modeling and Experimental Perturbation. PLoS Comput. Biol. 8(10) (2012) - 2009
- [j2]Junhee Seok, Wenzhong Xiao, Lyle L. Moldawer, Ronald W. Davis, Markus W. Covert:
A dynamic network of transcription in LPS-treated human subjects. BMC Syst. Biol. 3: 78 (2009) - 2008
- [j1]Markus W. Covert, Nan Xiao, Tiffany J. Chen, Jonathan R. Karr:
Integrating metabolic, transcriptional regulatory and signal transduction models in Escherichia coli. Bioinform. 24(18): 2044-2050 (2008)
Coauthor Index
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