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How to model DNA replication in stochastic models of synthetic gene circuits (and why)

Clamons, Samuel E. and Murray, Richard M. (2021) How to model DNA replication in stochastic models of synthetic gene circuits (and why). Cold Spring Harbor Laboratory . (Unpublished) https://resolver.caltech.edu/CaltechAUTHORS:20210929-174530596

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Abstract

Biocircuit modeling sometimes requires explicit tracking of a self-replicating DNA species. The most obvious, straightforward way to model a replicating DNA is structurally unstable and leads to pathological model behavior. We describe a simple, stable replication mechanism with good model behavior and show how to derive it from a mechanistic model of ColE1 replication.


Item Type:Report or Paper (Discussion Paper)
Related URLs:
URLURL TypeDescription
https://doi.org/10.1101/2021.09.26.461880DOIDiscussion Paper
https://github.com/sclamons/plasmid_replication_modelingRelated ItemCode
ORCID:
AuthorORCID
Clamons, Samuel E.0000-0002-7993-2278
Murray, Richard M.0000-0002-5785-7481
Additional Information:The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license. This version posted September 27, 2021. The authors thank John Marken and Andrew Halleran for insightful discussions and thoughtful editing. The authors have declared no competing interest.
DOI:10.1101/2021.09.26.461880
Record Number:CaltechAUTHORS:20210929-174530596
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20210929-174530596
Official Citation:How to model DNA replication in stochastic models of synthetic gene circuits (and why). Samuel E. Clamons, Richard M. Murray. bioRxiv 2021.09.26.461880; doi: https://doi.org/10.1101/2021.09.26.461880
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:111092
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:29 Sep 2021 20:04
Last Modified:16 Nov 2021 19:43

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