Author

Ryan K. Spangler

Stanford UniversityORCID 0000-0002-6080-3142Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:experimental assay· 2 Research Focus:software / tool· 2 Research Focus:benchmarking· 1 Organism:E. coli· 1 Approach:statistical model· 1

Frequent Co-Authors

Christopher John SkalnikiD· 2 shared Eran AgmoniD· 2 shared Jerry H. MorrisoniD· 2 shared Markus W. CovertiD· 2 shared Shayn M. PeirceiD· 2 shared Lee Talman· 1 shared William PooleiD· 1 shared

Activity by Year

2021-2022 · peak 1/yr

Co-Author Collaboration Network

7 top collaborators · 20 mutual co-author links

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2 shared papersSystems Biology

Christopher John SkalnikORCID

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2 papers

Recent·Most cited

Vivarium: an interface and engine for integrative multiscale modeling in computational biology

Eran Agmon, Ryan K. Spangler, Christopher John Skalnik, William Poole, Shayn M. Peirce, Jerry H. Morrison, Markus W. Covert

This paper introduces Vivarium, a software tool for building integrative multiscale models in computational biology, demonstrating its utility by combining multiple modeling frameworks.

Bioinformatics · Jan 28, 2022Peer-reviewedSystems Biology

Whole-Colony Modeling of Escherichia coli

Christopher John Skalnik, Eran Agmon, Ryan K. Spangler, Lee Talman, Jerry H. Morrison, Shayn M. Peirce, Markus W. Covert

The paper develops a whole-colony model of E. coli integrating single-cell mechanisms with population-level interactions, showing that AmpC expression, not AcrAB-TolC, drives antibiotic survival.

bioRxiv · Apr 27, 2021 · PreprintSystems Biology