ArticlePloS one2012
Spatial modeling of vesicle transport and the cytoskeleton: the challenge of hitting the right road.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
21 citing papers in PubMed, 39 citations in OpenAlex.
- The relation in MreB and intrabacterial nanotransportation system for VacA in Helicobacter pylori.Medical molecular morphology · 2025Article
- Passive diffusion accounts for the majority of intracellular nanovesicle transport.Life science alliance · 2024Article
- Galectin-9 interacts with Vamp-3 to regulate cytokine secretion in dendritic cells.Cellular and molecular life sciences : CMLS · 2023Article
- A multiscale model of the regulation of aquaporin 2 recycling.NPJ systems biology and applications · 2022Article
- Spatial redistribution of neurosecretory vesicles upon stimulation accelerates their directed transport to the plasma membrane.PloS one · 2022Article
- Quasi-steady-state reduction of a model for cytoplasmic transport of secretory vesicles in stimulated chromaffin cells.Journal of mathematical biology · 2021Article
- Molecular association of FtsZ with the intrabacterial nanotransportation system for urease in Helicobacter pylori.Medical molecular morphology · 2019Article
- Reconstruction of endosomal organization and function by a combination of ODE and agent-based modeling strategies.Biology direct · 2018Article
- Agents and networks to model the dynamic interactions of intracellular transport.Cellular logistics · 2017Article
- Point process models for localization and interdependence of punctate cellular structures.Cytometry. Part A : the journal of the International Society for Analytical Cytology · 2016Article
- ATP-association to intrabacterial nanotransportation system in Vibrio cholerae.Medical molecular morphology · 2015Article
- Explicit spatiotemporal simulation of receptor-G protein coupling in rod cell disk membranes.Biophysical journal · 2014Article
- Involvement of small G proteins and vesicle traffic in the glutoxim and molixan effects on the intracellular Ca(2+) concentration in macrophages.Doklady biological sciences : proceedings of the Academy of Sciences of the USSR, Biological sciences sections · 2014Article
- Synergy of cell-cell repulsion and vacuolation in a computational model of lumen formation.Journal of the Royal Society, Interface · 2014Article
- Simulation tools for particle-based reaction-diffusion dynamics in continuous space.BMC biophysics · 2014Review
- Computational modeling reveals optimal strategy for kinase transport by microtubules to nerve terminals.PloS one · 2014Article
- Real time measures of prestin charge and fluorescence during plasma membrane trafficking reveal sub-tetrameric activity.PloS one · 2013Article
- Hybrid spatial Gillespie and particle tracking simulation.Bioinformatics (Oxford, England) · 2012Article
- From microscopy data to in silico environments for in vivo-oriented simulations.EURASIP journal on bioinformatics & systems biology · 2012Article
- Spatial simulations in systems biology: from molecules to cells.International journal of molecular sciences · 2012Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The membrane trafficking machinery provides a transport and sorting system for many cellular proteins. We propose a mechanistic agent-based computer simulation to integrate and test the hypothesis of vesicle transport embedded into a detailed model cell. The method tracks both the number and location of the vesicles. Thus both the stochastic properties due to the low numbers and the spatial aspects are preserved. The underlying molecular interactions that control the vesicle actions are included in a multi-scale manner based on the model of Heinrich and Rapoport (2005). By adding motor proteins we can improve the recycling process of SNAREs and model cell polarization. Our model also predicts that coat molecules should have a high turnover at the compartment membranes, while the turnover of motor proteins has to be slow. The modular structure of the underlying model keeps it tractable despite the overall complexity of the vesicle system. We apply our model to receptor-mediated endocytosis and show how a polarized cytoskeleton structure leads to polarized distributions in the plasma membrane both of SNAREs and the Ste2p receptor in yeast. In addition, we can couple signal transduction and membrane trafficking steps in one simulation, which enables analyzing the effect of receptor-mediated endocytosis on signaling.
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Registered trials
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.