ReDiClusData

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ReDiClusData ReDiClusData

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3D Surface Plot

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2D surface plot with PSD areas marked with boxes

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SAP cluster for PSD1, note the size is initially bigger than PSD2

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SAP cluster at PSD2, note the number of SAP molecules expressed at the surface of PSD2 (6x6) is initially less than PSD1.

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PSD1: post synaptic density area "1". This PSD area is 6x6 units (1 unit equals 1 nm). The AMPAR 'red' particle diffusion rate in the PSD areas are scaled as a function of the total SAP expressed at their surface (D.psd = D.ec/SAP). So if the extracellular diffusion rate is 0.3 µm²/s and there are 10 SAP molecules in PSD1, then PSD1 diffusion rate would be D.psd = .3/10 = 0.03 µm²/s which are empirically relevant values.

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PSD2: post synaptic density area "2". This PSD area is 6x6 units (1 unit equals 1 nm). The AMPAR 'red' particle diffusion rate in the PSD areas are scaled as a function of the total SAP expressed at their surface (D.psd = D.ec/SAP). So if the extracellular diffusion rate is 0.3 µm²/s and there are 10 SAP molecules in PSD2, then PSD2 diffusion rate would be D.psd = .3/10 = 0.03 µm²/s which are empirically relevant values. In some experiments run in this model, you may see a set of blue particles appear at varied intervals. These represent calcium influx which impact the repulsion lattice for SAP cluster growth.

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This is the diffusion rate meter (aka D-Ometer) for PSD1. It provides information on the moment-to-moment diffusion rate inside PSD1. Note the meter is log scaled from .001 µm²/s to 1.0 µm²/s.

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This is the diffusion rate meter (aka D-Ometer) for PSD2. It provides information on the moment-to-moment diffusion rate inside PSD2. Note the meter is log scaled from .001 µm²/s to 1.0 µm²/s.

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These bar graphs represent the number of AMPAR (red) particles in a defined region: EC (extracellular), PSD1, PSD2, and PSDT (the total combined number of receptors in both PSD areas). In most simulations, if PSDT > 50, PSD clusters tend to shrink, and if PSDT < 30 SAP clusters tend to grow. This is due to the repulsion lattice changes, globally, based on the total number of receptors in synapses.

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This figure will appear in some simulations. It represents the timeline of SAP growth and shrinking the PSD areas. The blue line represents PSD1. This particular figure represents a simulated 20 minutes of activity.

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