ArticleThe Journal of general physiology2012
A data-driven model of a modal gated ion channel: the inositol 1,4,5-trisphosphate receptor in insect Sf9 cells.
Article in The Journal of general physiology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 44 citations in OpenAlex.
- Modelling ion channels with a view towards identifiability.Bulletin of mathematical biology · 2025Article
- A CaJournal of mathematical biology · 2025Article
- A structure-based computational model of IPBiophysical journal · 2024Article
- Upregulated CaCells · 2022Article
- Quantifying the dose-dependent impact of intracellular amyloid beta in a mathematical model of calcium regulation in xenopus oocyte.PloS one · 2021Article
- Article
- Data-driven modeling of mitochondrial dysfunction in Alzheimer's disease.Cell calcium · 2018Article
- Analyzing optical imaging of CaCell calcium · 2017Article
- Mode switching of Inositol 1,4,5-trisphosphate receptor channel shapes the Spatiotemporal scales of CaJournal of biological physics · 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
- Modelling modal gating of ion channels with hierarchical Markov models.Proceedings. Mathematical, physical, and engineering sciences · 2016Article
- Analyzing and Quantifying the Gain-of-Function Enhancement of IP3 Receptor Gating by Familial Alzheimer's Disease-Causing Mutants in Presenilins.PLoS computational biology · 2015Article
- Modeling for (physical) biologists: an introduction to the rule-based approach.Physical biology · 2015Review
- Inositol 1,4,5-trisphosphate receptors in the endoplasmic reticulum: A single-channel point of view.Cell calcium · 2015Review
- Modulation of elementary calcium release mediates a transition from puffs to waves in an IP3R cluster model.PLoS computational biology · 2015Article
- Analyzing and Modeling the Kinetics of Amyloid Beta Pores Associated with Alzheimer's Disease Pathology.PloS one · 2015Article
- Multiscale modelling of saliva secretion.Mathematical biosciences · 2014Article
- A deterministic model predicts the properties of stochastic calcium oscillations in airway smooth muscle cells.PLoS computational biology · 2014Article
- A stochastic model of calcium puffs based on single-channel data.Biophysical journal · 2013Article
- Quantitative properties and receptor reserve of the DAG and PKC branch of G(q)-coupled receptor signaling.The Journal of general physiology · 2013Article
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
Abstract
The inositol 1,4,5-trisphosphate (IP(3)) receptor (IP(3)R) channel is crucial for the generation and modulation of intracellular Ca(2+) signals in animal cells. To gain insight into the complicated ligand regulation of this ubiquitous channel, we constructed a simple quantitative continuous-time Markov-chain model from the data. Our model accounts for most experimentally observed gating behaviors of single native IP(3)R channels from insect Sf9 cells. Ligand (Ca(2+) and IP(3)) dependencies of channel activity established six main ligand-bound channel complexes, where a complex consists of one or more states with the same ligand stoichiometry and open or closed conformation. Channel gating in three distinct modes added one complex and indicated that three complexes gate in multiple modes. This also restricted the connectivity between channel complexes. Finally, latencies of channel responses to abrupt ligand concentration changes defined a model with specific network topology between 9 closed and 3 open states. The model with 28 parameters can closely reproduce the equilibrium gating statistics for all three gating modes over a broad range of ligand concentrations. It also captures the major features of channel response latency distributions. The model can generate falsifiable predictions of IP(3)R channel gating behaviors and provide insights to both guide future experiment development and improve IP(3)R channel gating analysis. Maximum likelihood estimates of the model parameters and of the parameters in the De Young-Keizer model yield strong statistical evidence in favor of our model. Our method is simple and easily applicable to the dynamics of other ion channels and molecules.
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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.