(Q33369221)

26 July 2017

title

Increasing the efficiency of bacterial transcription simulations: when to exclude the genome without loss of accuracy (English)

1 reference

26 July 2017

David R McMillen

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Marco A J Iafolla

1 reference

26 July 2017

Guang Qiang Dong

series ordinal

1 reference

26 July 2017

publication date

12 September 2008

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26 July 2017

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26 July 2017

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26 July 2017

page(s)

373

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Fractal reaction kinetics

26 July 2017

cites work

1 reference

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21 June 2018

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Noise in transcription negative feedback loops: simulation and experimental analysis

21 June 2018

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Noise in protein expression scales with natural protein abundance

21 June 2018

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Mathematical description of gene regulatory units

21 June 2018

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Origins of extrinsic variability in eukaryotic gene expression

21 June 2018

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Noise in gene expression: origins, consequences, and control

21 June 2018

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21 June 2018

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Stochasticity in gene expression: from theories to phenotypes

21 June 2018

1 reference

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Noise propagation in gene networks

21 June 2018

1 reference

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Modeling and simulation of biological systems with stochasticity

21 June 2018

1 reference

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In silico reconstitution of Listeria propulsion exhibits nano-saltation

21 June 2018

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Stochastic approaches for modelling in vivo reactions.

21 June 2018

1 reference

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Reaction kinetics in intracellular environments with macromolecular crowding: simulations and rate laws

21 June 2018

1 reference

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Noise minimization in eukaryotic gene expression

21 June 2018

1 reference

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Biochemical Network Stochastic Simulator (BioNetS): software for stochastic modeling of biochemical networks

21 June 2018

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Systems biology, proteomics, and the future of health care: toward predictive, preventative, and personalized medicine

21 June 2018

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Summing up the noise in gene networks

21 June 2018

1 reference

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From functional genomics to systems biology: concepts and practices

21 June 2018

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BioSPICE: access to the most current computational tools for biologists

21 June 2018

1 reference

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

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

The engineering of gene regulatory networks

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Noise in eukaryotic gene expression

21 June 2018

1 reference

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Modeling of signaling networks

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Engineered gene circuits.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Computational systems biology

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Monte carlo simulations of enzyme reactions in two dimensions: fractal kinetics and spatial segregation.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Intrinsic and extrinsic contributions to stochasticity in gene expression

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Stochastic gene expression in a single cell

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Assigning numbers to the arrows: parameterizing a gene regulation network by using accurate expression kinetics

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Systems biology: a brief overview

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

21 June 2018

Synthetic cell biology

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Stochasticity in transcriptional regulation: origins, consequences, and mathematical representations

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

A new approach to decoding life: systems biology

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Macromolecular crowding: obvious but underappreciated

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Intrinsic noise in gene regulatory networks

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Noise in a minimal regulatory network: plasmid copy number control

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Computational studies of gene regulatory networks: in numero molecular biology.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Protein mobility in the cytoplasm of Escherichia coli.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Signaling complexes: biophysical constraints on intracellular communication

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Polypeptide Chain Initiation: Nucleotide Sequences of the Three Ribosomal Binding Sites in Bacteriophage R17 RNA

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Non-genetic individuality: chance in the single cell

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Plasmid presence changes the relative levels of many host cell proteins and ribosome components in recombinant Escherichia coli

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Plasmid-borne prokaryotic gene expression: sources of variability and quantitative system characterization

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Extracting biochemical parameters for cellular modeling: A mean-field approach.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Noise in genetic and neural networks

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Physical nature of bacterial cytoplasm.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Stochastic simulation of chemical reactions with spatial resolution and single molecule detail.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

Predictable trends in protein noise

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2543029

31 October 2018

Identifiers

DOI

10.1186/1471-2105-9-373

1 reference

journals/bmcbi/IafollaDM08

26 July 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

0 references

1 reference

26 July 2017

1 reference