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Jonathan R. Karr

Berkeley College · US
Area of research
Molecular Biology · Information Systems and Management
Research interest
Research interests include Gene Regulatory Network Analysis, Microbial Metabolic Engineering and Bioproduction, Scientific Computing and Data Management, and Single-cell and spatial transcriptomics.
h-index
17
citations
2,529
works
88
NIH funding
—
primary concept
—
email
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Recent publications

Assembly and Dynamics of Transcription Initiation Complexes
Annual Review of Biochemistry 2025cited by 6position: middledoi
Toward Community Standards and Software for Whole-Cell Modeling
IEEE Transactions on Biomedical Engineering 2016cited by 62position: middledoi
Towards a whole-cell modeling approach for synthetic biology
Chaos An Interdisciplinary Journal of Nonlinear Science 2013cited by 71position: middledoi
A Whole-Cell Computational Model Predicts Phenotype from Genotype
Cell 2012cited by 1,305position: firstdoi

Grants

INSPIRE: Systematic, scalable representation and simulation of whole-cell models
NSF1649014$1,000,0002016–2020PIRePORTER
ERASynBio: MiniCell - A Model-driven Approach to Minimal Cell Engineering
NSF1548123$751,9992015–2019PIRePORTER

Frequent collaborators

Markus W. Covert · Stanford University2 papers (2012–2013)— · 1 papers (2025–2025)Timothy K. Lu · Massachusetts Institute of Technology1 papers (2013–2013)Oliver Purcell · Massachusetts Institute of Technology1 papers (2013–2013)— · 1 papers (2012–2012)Benjamin Bolival · Stanford University1 papers (2012–2012)Bonny Jain · Massachusetts Institute of Technology1 papers (2013–2013)Sathvik Anantakrishnan · University of California, Berkeley1 papers (2025–2025)Xavier Darzacq · Berkeley College1 papers (2025–2025)Jared M. Jacobs · Stanford University1 papers (2012–2012)Derek N. Macklin · Stanford University1 papers (2012–2012)Robert Tjian · Howard Hughes Medical Institute1 papers (2025–2025)Jayodita C. Sanghvi · Stanford University1 papers (2012–2012)— · 1 papers (2012–2012)Trinity Cookis · University of California, Berkeley1 papers (2025–2025)Claudia Cattoglio · University of California, Berkeley1 papers (2025–2025)Miriam V. Gutschow · Bristol-Myers Squibb (United States)1 papers (2012–2012)Meagan N. Esbin · University of California, Berkeley1 papers (2025–2025)