SPATKIN: a simulator for rule-based modeling of biomolecular site dynamics on surfaces. (Q42697158)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29036531%20AND%20SRC:MED&resulttype=core&format=json

7 April 2020

title

SPATKIN: a simulator for rule-based modeling of biomolecular site dynamics on surfaces (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29036531%20AND%20SRC:MED&resulttype=core&format=json

7 April 2020

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29036531%20AND%20SRC:MED&resulttype=core&format=json

7 April 2020

1

Marek Kochanczyk

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29036531%20AND%20SRC:MED&resulttype=core&format=json

7 April 2020

2

William S Hlavacek

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29036531%20AND%20SRC:MED&resulttype=core&format=json

7 April 2020

language of work or name

English

0 references

publication date

1 November 2017

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29036531%20AND%20SRC:MED&resulttype=core&format=json

7 April 2020

number of pages

3

1 reference

based on heuristic

inferred from page(s)

published in

Bioinformatics

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29036531%20AND%20SRC:MED&resulttype=core&format=json

7 April 2020

volume

33

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29036531%20AND%20SRC:MED&resulttype=core&format=json

7 April 2020

page(s)

3667-3669

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29036531%20AND%20SRC:MED&resulttype=core&format=json

7 April 2020

issue

22

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29036531%20AND%20SRC:MED&resulttype=core&format=json

Smoldyn: particle-based simulation with rule-based modeling, improved molecular interaction and a library interface

7 April 2020

cites work

1 reference

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Rule-based modeling with Virtual Cell.

27 August 2018

1 reference

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BioNetGen 2.2: advances in rule-based modeling.

27 August 2018

1 reference

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SpringSaLaD: A Spatial, Particle-Based Biochemical Simulation Platform with Excluded Volume

27 August 2018

1 reference

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Effective reaction rates for diffusion-limited reaction cycles

27 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5860254

Effective reaction rates in diffusion-limited phosphorylation-dephosphorylation cycles

27 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5860254

Rule-based modeling: a computational approach for studying biomolecular site dynamics in cell signaling systems.

27 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5860254

ReaDDy--a software for particle-based reaction-diffusion dynamics in crowded cellular environments

27 August 2018

1 reference

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A simulator for spatially extended kappa models

27 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5860254

Stochastic transitions in a bistable reaction system on the membrane

27 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5860254

Computational modeling of cellular signaling processes embedded into dynamic spatial contexts

27 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5860254

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

27 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5860254

Rule-based spatial modeling with diffusing, geometrically constrained molecules

27 August 2018

1 reference

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Efficient stochastic simulation of reaction-diffusion processes via direct compilation

27 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5860254

Dynamics of a stochastic spatially extended system predicted by comparing deterministic and stochastic attractors of the corresponding birth-death process

27 August 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/29036531

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/BIOINFORMATICS/BTX456

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29036531%20AND%20SRC:MED&resulttype=core&format=json

journals/bioinformatics/KochanczykHL17

7 April 2020

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29036531%20AND%20SRC:MED&resulttype=core&format=json

7 April 2020

1 reference