2022
Efficient Simulation of 3D Reaction-Diffusion in Models of Neurons and Networks
McDougal RA, Conte C, Eggleston L, Newton AJH, Galijasevic H. Efficient Simulation of 3D Reaction-Diffusion in Models of Neurons and Networks. Frontiers In Neuroinformatics 2022, 16: 847108. PMID: 35655652, PMCID: PMC9152282, DOI: 10.3389/fninf.2022.847108.Peer-Reviewed Original ResearchFinite volume method simulationIrregular 3D geometryMethod simulationsDouglas-GunnDimensional simulationsHigh-dimensional simulationsWave curvatureEfficient simulationSimulationsParallel algorithmCylinderModels of neuronsNetwork modelNEURON simulatorReconstruction algorithmRegion of interestAccelerated versionConnected cylindersReaction diffusionReaction-diffusion kineticsElectrophysiological simulationsAlgorithmKinetics
2013
Water-tight membranes from neuronal morphology files
McDougal RA, Hines ML, Lytton WW. Water-tight membranes from neuronal morphology files. Journal Of Neuroscience Methods 2013, 220: 167-178. PMID: 24091136, PMCID: PMC4197804, DOI: 10.1016/j.jneumeth.2013.09.011.Peer-Reviewed Original ResearchConceptsConstructive solid geometryFull shapeGeometry algorithmsSolid geometryElectrophysiology simulationsTriangular meshesMulti-scale modelSuch modelsReaction-diffusion simulationsElectrophysiological simulationsSimple interpretationGeometryAlgorithmSurface trianglesSimulationsList of pointsSpace constantsMorphology descriptionDistance calculationNeuronal geometryThree-dimensional shapeSmall objects