ArticleBiophysical journal2007
Hybrid stochastic and deterministic simulations of calcium blips.
Article in Biophysical journal, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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Who cites it
41 citing papers in PubMed.
- Beyond the membrane: rethinking EGFR signaling in physiology and cancer.Cellular and molecular life sciences : CMLS · 2026Review
- A CaJournal of mathematical biology · 2025Article
- Close agreement between deterministic versus stochastic modeling of first-passage time to vesicle fusion.Biophysical journal · 2022Article
- Efficient Approximations for Stationary Single-Channel CaBiophysical journal · 2020Article
- Delayed afterdepolarization-induced triggered activity in cardiac purkinje cells mediated through cytosolic calcium diffusion waves.Physiological reports · 2019Article
- Simulation of calcium signaling in fine astrocytic processes: Effect of spatial properties on spontaneous activity.PLoS computational biology · 2019Article
- Extension of Rapid Buffering Approximation to CaBiophysical journal · 2018Article
- Determining the Roles of Inositol Trisphosphate Receptors in Neurodegeneration: Interdisciplinary Perspectives on a Complex Topic.Molecular neurobiology · 2017Review
- Snoopy's hybrid simulator: a tool to construct and simulate hybrid biological models.BMC systems biology · 2017Article
- Mapping Interpuff Interval Distribution to the Properties of Inositol Trisphosphate Receptors.Biophysical journal · 2017Article
- A mathematical model of calcium dynamics in HSY cells.PLoS computational biology · 2017Article
- Numerical Approach to Spatial Deterministic-Stochastic Models Arising in Cell Biology.PLoS computational biology · 2016Article
- Calcium waves in a grid of clustered channels with synchronous IPThe European physical journal. E, Soft matter · 2016Article
- Padé Approximation of a Stationary Single-Channel CaBiophysical journal · 2016Article
- Emergence of ion channel modal gating from independent subunit kinetics.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- A hybrid algorithm for coupling partial differential equation and compartment-based dynamics.Journal of the Royal Society, Interface · 2016Article
- Role of Cytosolic Calcium Diffusion in Murine Cardiac Purkinje Cells.Clinical Medicine Insights. Cardiology · 2016Review
- Efficient Integration of Coupled Electrical-Chemical Systems in Multiscale Neuronal Simulations.Frontiers in computational neuroscience · 2016Article
- Exact stochastic simulation of a calcium microdomain reveals the impact of Ca²⁺ fluctuations on IP₃R gating.Biophysical journal · 2015Article
- Modulation of elementary calcium release mediates a transition from puffs to waves in an IP3R cluster model.PLoS computational biology · 2015Article
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7 authors.
Funding
Abstract
Intracellular calcium release is a prime example for the role of stochastic effects in cellular systems. Recent models consist of deterministic reaction-diffusion equations coupled to stochastic transitions of calcium channels. The resulting dynamics is of multiple time and spatial scales, which complicates far-reaching computer simulations. In this article, we introduce a novel hybrid scheme that is especially tailored to accurately trace events with essential stochastic variations, while deterministic concentration variables are efficiently and accurately traced at the same time. We use finite elements to efficiently resolve the extreme spatial gradients of concentration variables close to a channel. We describe the algorithmic approach and we demonstrate its efficiency compared to conventional methods. Our single-channel model matches experimental data and results in intriguing dynamics if calcium is used as charge carrier. Random openings of the channel accumulate in bursts of calcium blips that may be central for the understanding of cellular calcium dynamics.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.