Jay D. Keasling

11 papers Journal 10Unranked 1
YearRankTypeTitle / Venue / Authors
2025 J jnl
Low-N Protein Activity Optimization with FolDE.
CoRR
Jacob B. Roberts, Catherine Ji, Isaac Donnell, Thomas D. Young, Allison N. Pearson, Graham A. Hudson, Leah S. Keiser, Mia Wesselkamper, Peter H. Winegar, Janik Ludwig, Sarah H. Klass, Isha V. Sheth, Ezechinyere C. Ukabiala, Maria C. T. Astolfi, Benjamin Eysenbach, Jay D. Keasling
2024 J jnl
Foldy: An open-source web application for interactive protein structure analysis.
PLoS Comput. Biol.
Jacob B. Roberts, Alberto A Nava, Allison N. Pearson, Matthew R. Incha, Luis E. Valencia, Melody Ma, Abhay Rao, Jay D. Keasling
2024 J jnl
teemi: An open-source literate programming approach for iterative design-build-test-learn cycles in bioengineering.
PLoS Comput. Biol.
Søren D. Petersen, Lucas Levassor, Christine M. Pedersen, Jan Madsen, Lea G. Hansen, Jie Zhang, Ahmad K. Haidar, Rasmus John Normand Frandsen, Jay D. Keasling, Tilmann Weber, Nikolaus Sonnenschein, Michael K. Jensen
2023 J jnl
BayFlux: A Bayesian method to quantify metabolic Fluxes and their uncertainty at the genome scale.
PLoS Comput. Biol.
Tyler W. H. Backman, Christina Schenk, Tijana Radivojevic, David Ando, Jahnavi Singh, Jeffrey J. Czajka, Zak Costello, Jay D. Keasling, Yinjie J. Tang, Elena V. Akhmatskaya, Héctor García Martín
2023 J jnl
ClusterCAD 2.0: an updated computational platform for chimeric type I polyketide synthase and nonribosomal peptide synthetase design.
Nucleic Acids Res.
Xavier B. Tao, Sarah Lafrance, Yifei Xing, Alberto A Nava, Héctor García Martín, Jay D. Keasling, Tyler W. H. Backman
2018 J jnl
ClusterCAD: a computational platform for type I modular polyketide synthase design.
Nucleic Acids Res.
Clara H. Eng, Tyler W. H. Backman, Constance B. Bailey, Christophe N. Magnan, Héctor García Martín, Leonard Katz, Pierre Baldi, Jay D. Keasling
2017 J jnl
Erratum to: The JBEI quantitative metabolic modeling library (jQMM): a python library for modeling microbial metabolism.
BMC Bioinform.
Garrett W. Birkel, Amit Ghosh, Vinay Satish Kumar, Daniel Weaver, David Ando, Tyler W. H. Backman, Adam P. Arkin, Jay D. Keasling, Héctor García Martín
2017 J jnl
The JBEI quantitative metabolic modeling library (jQMM): a python library for modeling microbial metabolism.
BMC Bioinform.
Garrett W. Birkel, Amit Ghosh, Vinay Satish Kumar, Daniel Weaver, David Ando, Tyler W. H. Backman, Adam P. Arkin, Jay D. Keasling, Héctor García Martín
2015 J jnl
A Method to Constrain Genome-Scale Models with
PLoS Comput. Biol.
Héctor García Martín, Vinay Satish Kumar, Daniel Weaver, Amit Ghosh, Victor Chubukov, Aindrila Mukhopadhyay, Adam P. Arkin, Jay D. Keasling
2014 J jnl
A Peptide-Based Method for
PLoS Comput. Biol.
Amit Ghosh, Jerome P. Nilmeier, Daniel Weaver, Paul D. Adams, Jay D. Keasling, Aindrila Mukhopadhyay, Christopher J. Petzold, Héctor García Martín
2014 — conf
Independence among synthetic genetic devices in the bacterium Escherichia coli extends to the time-domain.
BioCAS
Meghdad Hajimorad, Jay D. Keasling