Jonathan Karr

Affiliations: 
Biophysics Stanford University, Palo Alto, CA 
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"Jonathan Karr"
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Publications

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Medley JK, Goldberg A, Karr JR. (2016) Guidelines for reproducibly building and simulating systems biology models. Ieee Transactions On Bio-Medical Engineering
Cokelaer T, Bansal M, Bare C, et al. (2015) DREAMTools: a Python package for scoring collaborative challenges. F1000research. 4: 1030
Kazakiewicz D, Karr JR, Langner KM, et al. (2015) A combined systems and structural modeling approach repositions antibiotics for Mycoplasma genitalium. Computational Biology and Chemistry
Karr JR, Takahashi K, Funahashi A. (2015) The principles of whole-cell modeling. Current Opinion in Microbiology. 27: 18-24
Karr JR, Williams AH, Zucker JD, et al. (2015) Summary of the DREAM8 Parameter Estimation Challenge: Toward Parameter Identification for Whole-Cell Models. Plos Computational Biology. 11: e1004096
Karr JR, Guturu H, Chen EY, et al. (2015) NetworkPainter: dynamic intracellular pathway animation in Cytobank. Bmc Bioinformatics. 16: 172
Karr JR, Phillips NC, Covert MW. (2014) WholeCellSimDB: a hybrid relational/HDF database for whole-cell model predictions. Database : the Journal of Biological Databases and Curation. 2014
Sanghvi JC, Regot S, Carrasco S, et al. (2013) Accelerated discovery via a whole-cell model. Nature Methods. 10: 1192-5
Lee R, Karr JR, Covert MW. (2013) WholeCellViz: data visualization for whole-cell models. Bmc Bioinformatics. 14: 253
Purcell O, Jain B, Karr JR, et al. (2013) Towards a whole-cell modeling approach for synthetic biology. Chaos (Woodbury, N.Y.). 23: 025112
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