Detailed simulations of cell biology with Smoldyn 2.1 - Wikidata - awgldk - TriplyDB

Detailed simulations of cell biology with Smoldyn 2.1

Detailed simulations of cell biology with Smoldyn 2.1

http://www.wikidata.org/entity/Q28473184

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Intrinsic noise analyzer: a software package for the exploration of stochastic biochemical kinetics using the system size expansion RuleMonkey: software for stochastic simulation of rule-based models Ultrasensitivity in multisite phosphorylation of membrane-anchored proteins Calcium: amplitude, duration, or location?Simulating Stochastic Reaction-Diffusion Systems on and within Moving Boundaries Asymmetrical Inheritance of Plasmids Depends on Dynamic Cellular Geometry and Volume Exclusion Effects Yeast mating and image-based quantification of spatial pattern formation A density-dependent switch drives stochastic clustering and polarization of signaling molecules Linking morphodynamics and directional persistence of T lymphocyte migration A machine learning method for the prediction of receptor activation in the simulation of synapses Approaches and tools for modeling signaling pathways and calcium dynamics in neurons Bistability: requirements on cell-volume, protein diffusion, and thermodynamics A Complete Pathway Model for Lipid A Biosynthesis in Escherichia coli Unbiased Rare Event Sampling in Spatial Stochastic Systems Biology Models Using a Weighted Ensemble of Trajectories Stochastic Simulation Service: Bridging the Gap between the Computational Expert and the Biologist 1D-3D hybrid modeling-from multi-compartment models to full resolution models in space and time.Meeting report from the fourth meeting of the Computational Modeling in Biology Network (COMBINE)Rule-based multi-level modeling of cell biological systems An integrated model of transcription factor diffusion shows the importance of intersegmental transfer and quaternary protein structure for target site finding.Computational modeling of cellular signaling processes embedded into dynamic spatial contexts.STEPS: efficient simulation of stochastic reaction-diffusion models in realistic morphologies Local Pheromone Release from Dynamic Polarity Sites Underlies Cell-Cell Pairing during Yeast Mating Computational models for large-scale simulations of facilitated diffusion Input-output relations in biological systems: measurement, information and the Hill equation.Hierarchical graphs for rule-based modeling of biochemical systems STSE: Spatio-Temporal Simulation Environment Dedicated to Biology.Rule-based modelling and simulation of biochemical systems with molecular finite automata.Utilization of extracellular information before ligand-receptor binding reaches equilibrium expands and shifts the input dynamic range.Spatial modeling of cell signaling networks.URDME: a modular framework for stochastic simulation of reaction-transport processes in complex geometries Logic modeling and the ridiculome under the rug.Stochastic simulation in systems biology.An accelerated algorithm for discrete stochastic simulation of reaction-diffusion systems using gradient-based diffusion and tau-leaping.ReaDDy--a software for particle-based reaction-diffusion dynamics in crowded cellular environments Reaction-diffusion in the NEURON simulator.Systems biology in immunology: a computational modeling perspective.Guidelines for visualizing and annotating rule-based models Simulation tools for particle-based reaction-diffusion dynamics in continuous space.Free-Propagator Reweighting Integrator for Single-Particle Dynamics in Reaction-Diffusion Models of Heterogeneous Protein-Protein Interaction Systems.The influence of synaptic size on AMPA receptor activation: a Monte Carlo model

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P2860

Detailed simulations of cell biology with Smoldyn 2.1

http://www.wikidata.org/entity/Q28473184

description

2010 nî lūn-bûn

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2010 թուականի Մարտին հրատարակուած գիտական յօդուած

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2010 թվականի մարտին հրատարակված գիտական հոդված

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2010年の論文

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2010年論文

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2010年論文

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2010年論文

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2010年論文

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2010年論文

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2010年论文

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Detailed simulations of cell biology with Smoldyn 2.1

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Detailed simulations of cell biology with Smoldyn 2.1

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Detailed simulations of cell biology with Smoldyn 2.1

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Detailed simulations of cell biology with Smoldyn 2.1

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Detailed simulations of cell biology with Smoldyn 2.1

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Detailed simulations of cell biology with Smoldyn 2.1

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Detailed simulations of cell biology with Smoldyn 2.1

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Detailed simulations of cell biology with Smoldyn 2.1

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Detailed simulations of cell biology with Smoldyn 2.1

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JOURNAL.PCBI.1000705

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PLOS Computational Biology

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Detailed simulations of cell biology with Smoldyn 2.1

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Nathan J Addy

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Roger Brent

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Steven S Andrews

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P2860

Evidence for ectopic neurotransmission at a neuronal synapse

The CyberCell Database (CCDB): a comprehensive, self-updating, relational database to coordinate and facilitate in silico modeling of Escherichia coli

A walk-through of the yeast mating pheromone response pathway

Three-dimensional reconstruction of the membrane skeleton at the plasma membrane interface by electron tomography

Expression of the BAR1 gene in Saccharomyces cerevisiae: induction by the alpha mating pheromone of an activity associated with a secreted protein

Identification of two mannoproteins released from cell walls of a Saccharomyces cerevisiae mnn1 mnn9 double mutant by reducing agents

Rapid turnover of stereocilia membrane proteins: evidence from the trafficking and mobility of plasma membrane Ca(2+)-ATPase 2.

Chemotaxis in Escherichia coli analysed by three-dimensional tracking

Introducing simulated cellular architecture to the quantitative analysis of fluorescent microscopy.

A new multicompartmental reaction-diffusion modeling method links transient membrane attachment of E. coli MinE to E-ring formation.

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