(Q28541849)

4

0 references

Leonard A. Harris

object named as

Leonard A Harris

2

0 references

author name string

Justin S Hogg

1

0 references

Lori J Stover

PLOS Computational Biology

3

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language of work or name

English

0 references

publication date

April 2014

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published in

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volume

10

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issue

4

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page(s)

e1003544

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copyright license

Creative Commons Attribution 4.0 International

start time

3 April 2014

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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A constant-time kinetic Monte Carlo algorithm for simulation of large biochemical reaction networks

19 March 2017

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Emergence of large-scale cell morphology and movement from local actin filament growth dynamics

19 March 2017

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Accurate hybrid stochastic simulation of a system of coupled chemical or biochemical reactions

19 March 2017

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Cellular motility driven by assembly and disassembly of actin filaments

19 March 2017

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Pleomorphic ensembles: formation of large clusters composed of weakly interacting multivalent molecules

19 March 2017

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Rule-based modeling of signal transduction: a primer.

29 September 2017

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Specification, annotation, visualization and simulation of a large rule-based model for ERBB receptor signaling.

29 September 2017

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Computational modeling of cellular signaling processes embedded into dynamic spatial contexts

29 September 2017

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Hybrid modeling and simulation of stochastic effects on progression through the eukaryotic cell cycle

29 September 2017

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Toward a comprehensive language for biological systems

29 September 2017

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Rule-based multi-level modeling of cell biological systems

29 September 2017

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The efficiency of reactant site sampling in network-free simulation of rule-based models for biochemical systems

29 September 2017

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Efficient modeling, simulation and coarse-graining of biological complexity with NFsim

29 September 2017

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SnapShot: key numbers in biology

29 September 2017

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IgE, mast cells, basophils, and eosinophils

29 September 2017

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Modeling multivalent ligand-receptor interactions with steric constraints on configurations of cell-surface receptor aggregates

29 September 2017

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Efficient stochastic simulation of reaction-diffusion processes via direct compilation

29 September 2017

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Rule-based modeling of biochemical systems with BioNetGen

29 September 2017

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Internal coarse-graining of molecular systems

29 September 2017

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Simulation of large-scale rule-based models

29 September 2017

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29 September 2017

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Kinetic Monte Carlo method for rule-based modeling of biochemical networks.

29 September 2017

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Exact model reduction of combinatorial reaction networks

29 September 2017

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Stochastic severing of actin filaments by actin depolymerizing factor/cofilin controls the emergence of a steady dynamical regime

29 September 2017

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Network analysis of oncogenic Ras activation in cancer

29 September 2017

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Physicochemical modelling of cell signalling pathways.

29 September 2017

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A "partitioned leaping" approach for multiscale modeling of chemical reaction dynamics

29 September 2017

1 reference

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Stochastic simulation of chemical kinetics

29 September 2017

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Rules for modeling signal-transduction systems

29 September 2017

1 reference

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Multiscale Hy3S: hybrid stochastic simulation for supercomputers.

29 September 2017

1 reference

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Efficient step size selection for the tau-leaping simulation method

29 September 2017

1 reference

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The sorting direct method for stochastic simulation of biochemical systems with varying reaction execution behavior

29 September 2017

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Trading the micro-world of combinatorial complexity for the macro-world of protein interaction domains.

29 September 2017

1 reference

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Signaling through receptors and scaffolds: independent interactions reduce combinatorial complexity

29 September 2017

1 reference

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Automatic generation of cellular reaction networks with Moleculizer 1.0.

29 September 2017

1 reference

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BioNetGen: software for rule-based modeling of signal transduction based on the interactions of molecular domains

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3974646

Mathematical and computational models of immune-receptor signalling

29 September 2017

1 reference

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A multi-scaled approach for simulating chemical reaction systems.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3974646

The complexity of complexes in signal transduction.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3974646

Modeling the early signaling events mediated by FcepsilonRI.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3974646

Whole-cell simulation: a grand challenge of the 21st century

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3974646

Guanine nucleotide exchange factors: activators of Ras superfamily proteins

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3974646

Equilibrium theory for the clustering of bivalent cell surface receptors by trivalent ligands. Application to histamine release from basophils

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3974646

Hybrid simulation of cellular behavior

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3974646

A network model of early events in epidermal growth factor receptor signaling that accounts for combinatorial complexity

3 June 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

A general method for numerically simulating the stochastic time evolution of coupled chemical reactions

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

Exact stochastic simulation of coupled chemical reactions

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

Efficient Exact Stochastic Simulation of Chemical Systems with Many Species and Many Channels

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

Efficient formulation of the stochastic simulation algorithm for chemically reacting systems

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

A multi-algorithm, multi-timescale method for cell simulation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

Adaptive stochastic-deterministic chemical kinetic simulations.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

Dynamic partitioning for hybrid simulation of the bistable HIV-1 transactivation network.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

A hybrid deterministic-stochastic algorithm for modeling cell signaling dynamics in spatially inhomogeneous environments and under the influence of external fields

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

'On-the-fly' or 'generate-first' modeling?

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

Investigation of early events in Fc epsilon RI-mediated signaling using a detailed mathematical model

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

Individual Comparisons by Ranking Methods

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

On a Test of Whether one of Two Random Variables is Stochastically Larger than the Other

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

X. On the criterion that a given system of deviations from the probable in the case of a correlated system of variables is such that it can be reasonably supposed to have arisen from random sampling

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

Temporal coarse-graining of microscopic-lattice kinetic Monte Carlo simulations via tau leaping

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

Approximate accelerated stochastic simulation of chemically reacting systems

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

Dynamics of the Ras/ERK MAPK Cascade as Monitored by Fluorescent Probes

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1003544

10.1371/JOURNAL.PCBI.1003544

21 January 2018

Identifiers

DOI

0 references

1 reference

journals/ploscb/HoggHSNF14

1 reference