Incorporating stochastic gene expression, signaling-mediated intercellular interactions, and regulated cell proliferation in models of coordinated tissue development Article Swipe
Casey O. Barkan
,
Tom Chou
·
YOU?
·
· 2025
· Open Access
·
· DOI: https://doi.org/10.48550/arxiv.2501.11271
YOU?
·
· 2025
· Open Access
·
· DOI: https://doi.org/10.48550/arxiv.2501.11271
Formulating quantitative and predictive models for tissue development requires consideration of the complex, stochastic gene expression dynamics, its regulation via cell-to-cell interactions, and cell proliferation. Including all of these processes into a practical mathematical framework requires complex expressions that are difficult to interpret and apply. We construct a simple theory that incorporates intracellular stochastic gene expression dynamics, signaling chemicals that influence these dynamics and mediate cell-cell interactions, and cell proliferation and its accompanying differentiation. Cellular states (genetic and epigenetic) are described by a Waddington vector field that allows for non-gradient dynamics (cycles, entropy production, loss of detailed balance) which is precluded in Waddington potential landscape representations of gene expression dynamics. We define an epigenetic fitness landscape that describes the proliferation of different cell types, and elucidate how this fitness landscape is related to Waddington's vector field. We illustrate the applicability of our framework by analyzing two model systems: an interacting two-gene differentiation process and a spatiotemporal organism model inspired by planaria.
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Metadata
- Type
- preprint
- Language
- en
- Landing Page
- http://arxiv.org/abs/2501.11271
- https://arxiv.org/pdf/2501.11271
- OA Status
- green
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4406734989
All OpenAlex metadata
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- OpenAlex ID
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https://openalex.org/W4406734989Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.48550/arxiv.2501.11271Digital Object Identifier
- Title
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Incorporating stochastic gene expression, signaling-mediated intercellular interactions, and regulated cell proliferation in models of coordinated tissue developmentWork title
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preprintOpenAlex work type
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enPrimary language
- Publication year
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2025Year of publication
- Publication date
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2025-01-20Full publication date if available
- Authors
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Casey O. Barkan, Tom ChouList of authors in order
- Landing page
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https://arxiv.org/abs/2501.11271Publisher landing page
- PDF URL
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https://arxiv.org/pdf/2501.11271Direct link to full text PDF
- Open access
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YesWhether a free full text is available
- OA status
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greenOpen access status per OpenAlex
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https://arxiv.org/pdf/2501.11271Direct OA link when available
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Cell biology, Intracellular, Gene expression, Expression (computer science), Gene, Signal transduction, Cell growth, Biology, Genetics, Computer science, Programming languageTop concepts (fields/topics) attached by OpenAlex
- Cited by
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0Total citation count in OpenAlex
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10Other works algorithmically related by OpenAlex
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