Simulation of large-scale rule-based models (Q34943895)

5 August 2017

title

Simulation of large-scale rule-based models (English)

1 reference

5 August 2017

James R Faeder

1 reference

5 August 2017

Joshua Colvin

1 reference

5 August 2017

Michael I Monine

1 reference

5 August 2017

William S Hlavacek

1 reference

5 August 2017

Daniel D Von Hoff

1 reference

5 August 2017

Richard G Posner

1 reference

5 August 2017

language of work or name

English

0 references

publication date

11 February 2009

1 reference

5 August 2017

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5 August 2017

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5 August 2017

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5 August 2017

page(s)

910-917

1 reference

Rule-based modeling of biochemical systems with BioNetGen

5 August 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

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=2660871

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=2660871

Trivalent ligands with rigid DNA spacers reveal structural requirements for IgE receptor signaling in RBL mast cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

Carbon-fate maps for metabolic reactions.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

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=2660871

Trivalent antigens for degranulation of mast cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

A synthetic trivalent hapten that aggregates anti-2,4-DNP IgG into bicyclic trimers

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

Stochastic simulation of chemical kinetics

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

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=2660871

A domain-oriented approach to the reduction of combinatorial complexity in signal transduction 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=2660871

Signaling through receptors and scaffolds: independent interactions reduce combinatorial complexity

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

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=2660871

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

The complexity of complexes in signal transduction.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

STOCHSIM: modelling of stochastic biomolecular processes.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

The effect of receptor density on the forward rate constant for binding of ligands to cell surface receptors

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

Transmembrane signaling: the joy of aggregation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

Theory of equilibrium binding of symmetric bivalent haptens to cell surface antibody: application to histamine release from basophils

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

Predicting temporal fluctuations in an intracellular signalling pathway

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2660871

Using process diagrams for the graphical representation of biological networks

26 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19213740

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

A quantitative approach for studying IgE-FcepsilonRI aggregation

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19213740

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Kinetics of multivalent antigen DNP-BSA binding to IgE-Fc epsilon RI in relationship to the stimulated tyrosine phosphorylation of Fc epsilon RI

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19213740

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/BIOINFORMATICS/BTP066

1 reference

journals/bioinformatics/ColvinMFHHP09

5 August 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

5 August 2017

1 reference