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Turing's reaction-diffusion system - 2
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2021.1.20 Thirsty of Theoretical Biology
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Experience the Turing system!
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Original reaction-diffusion model
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The simulations beautifully regenerate the animal pattern
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an alternative mechanism Positional information model
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How can we prove the existence of the Turing system?
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[Code Walkthrough]
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Prediction by the Turing simulation
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Napoleon fish
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How the pattern change?
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Time course of pattern change
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Skin patterns of fish show specific dynamics of Turing pattern
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Parameter analysis of RD mechanism
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Additional evidence II
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Experiments to identify the real mechanism following the idea of "Reductionism"
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Short range inhibition
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Exclusion melanophores by xanthophores
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Interaction occurs by the direct touch
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Finding long range interaction
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Melanophores in the center of the black stripe extend the long projection toward xanthophores
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Major interactions between the pigment cells
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To "tune" the activity of cx418, series of deletions at the amino-terminal are generated.
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Modulation of single gene activity can generate variety of patterns
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Is the identified mechanism equal to the RD model?
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Identified network is similar to the Turing model.
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Summary
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Problem!! No diffusion in the real system.
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Agent-based model
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Merits of the Agent-based model
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Agent Based Model
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Original reaction-diffusion model
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Diffusion from cell body Diffusion from cell projection
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Representing the interaction profile by kernel
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KT Model Simulator
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Random Pattern Clear Field
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[Demo]
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KT model can generate standard patterns of the RD model
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Inverted kernel make the waves with different wave length
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Small change of the kernel cause the massive change of wave length
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The kernel shape does not affect to the resulting pattern.
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Nested patterns in simulation and in fish
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Merits of the KT model
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Periodic patterns in organisms
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Zebra vs Horse
Description:
Explore Turing's reaction-diffusion system in this comprehensive lecture from the "Thirsting for Theoretical Biology" discussion meeting. Delve into the original model and its simulations of animal patterns, comparing it with alternative mechanisms like the positional information model. Examine evidence for the Turing system's existence in nature, including experiments on pigment cell interactions in fish. Investigate an agent-based approach to overcome limitations of the classical model, demonstrating how it can generate various patterns observed in organisms. Learn about the KT Model Simulator and its applications in understanding periodic patterns in nature, from fish skin to zebra stripes.

Turing's Reaction-Diffusion System and Agent-Based Models in Biology - Lecture 2

International Centre for Theoretical Sciences
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#Science #Biology #Mathematical Biology #Computer Science #Agent-Based Modeling #Data Science #Bioinformatics #Computational Biology #Developmental Biology #Morphogenesis #Mathematics #Differential Equations #Reaction-Diffusion Systems
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Turing's reaction-diffusion system - 2