Efficient stochastic simulation of reaction-diffusion processes via direct compilation (Q34990701)

5 August 2017

Efficient stochastic simulation of reaction-diffusion processes via direct compilation (English)

1 reference

5 August 2017

2

Maxim N Artyomov

1 reference

5 August 2017

Mieszko Lis

1

1 reference

5 August 2017

Srinivas Devadas

series ordinal

3

1 reference

5 August 2017

Arup K Chakraborty

series ordinal

4

1 reference

5 August 2017

language of work or name

English

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publication date

3 July 2009

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5 August 2017

3

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based on heuristic

inferred from page(s)

published in

Bioinformatics

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5 August 2017

25

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5 August 2017

2289-2291

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5 August 2017

17

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Systems Biology Markup Language (SBML) Level 2 Version 5: Structures and Facilities for Model Definitions

5 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

Rule-based modeling of biochemical systems with BioNetGen

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

Purely stochastic binary decisions in cell signaling models without underlying deterministic bistabilities

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

Algorithms and software for stochastic simulation of biochemical reacting systems

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

Spontaneous separation of bi-stable biochemical systems into spatial domains of opposite phases

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

Key role of local regulation in chemosensing revealed by a new molecular interaction-based modeling method

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

Rules for modeling signal-transduction systems

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

Stochastic reaction-diffusion simulation with MesoRD.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

Automatic generation of cellular reaction networks with Moleculizer 1.0.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

The immunological synapse: a molecular machine controlling T cell activation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

Tools for the SBML Community.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

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

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

Efficient formulation of the stochastic simulation algorithm for chemically reacting systems

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

The immunological synapse balances T cell receptor signaling and degradation

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

Predicting temporal fluctuations in an intracellular signalling pathway.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2734316

10.1093/BIOINFORMATICS/BTP387

26 October 2018

Identifiers

DOI

1 reference

journals/bioinformatics/LisADC09

5 August 2017

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

5 August 2017

1 reference