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MODEL1004010001
reaction: 517792
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notes: This the detailed model for 37°C from the article: Temperature Control of Fimbriation Circuit Switch in Uropathogenic Escherichia coli : Quantitative Analysis via Automated Model Abstraction. Hiroyuki Kuwahara, Chris J. Myers and Michael S. Samoilov PLoS Comput Biol. 2010 6(3): e1000723. doi: 10.1371/journal.pcbi.1000723 , Abstract: Uropathogenic Escherichia coli (UPEC) represent the predominant cause of urinary tract infections (UTIs). A key UPEC molecular virulence mechanism is type 1 fimbriae, whose expression is controlled by the orientation of an invertible chromosomal DNA element—the fim switch. Temperature has been shown to act as a major regulator of fim switching behavior and is overall an important indicator as well as functional feature of many urologic diseases, including UPEC host-pathogen interaction dynamics. Given this panoptic physiological role of temperature during UTI progression and notable empirical challenges to its direct in vivo studies, in silico modeling of corresponding biochemical and biophysical mechanisms essential to UPEC pathogenicity may significantly aid our understanding of the underlying disease processes. However, rigorous computational analysis of biological systems, such as fim switch temperature control circuit, has hereto presented a notoriously demanding problem due to both the substantial complexity of the gene regulatory networks involved as well as their often characteristically discrete and stochastic dynamics. To address these issues, we have developed an approach that enables automated multiscale abstraction of biological system descriptions based on reaction kinetics. Implemented as a computational tool, this method has allowed us to efficiently analyze the modular organization and behavior of the E. coli fimbriation switch circuit at different temperature settings, thus facilitating new insights into this mode of UPEC molecular virulence regulation. In particular, our results suggest that, with respect to its role i…
parameter: 517849
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curated: false
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length unit: 335510
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parameter: 517841
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is described by: http://identifiers.org/pubmed/20361050
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517739
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160874
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160328
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517856
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517793
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160970
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517897
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517814
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517801
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517867
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517900
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517784
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517898
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517878
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517771
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517905
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160569
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517899
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160509
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517792
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160898
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517903
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type: Parameter

161565
stoichiometry: 1.0
species: 517745
type: SpeciesReference

517760
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 517739
name: s21
type: Species

161141
stoichiometry: 1.0
species: 517775
type: SpeciesReference

160692
stoichiometry: 1.0
species: 517741
type: SpeciesReference

160644
stoichiometry: 1.0
species: 517772
type: SpeciesReference

517770
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 517739
name: s7
type: Species

161818
stoichiometry: 1.0
species: 517765
type: SpeciesReference

160316
stoichiometry: 1.0
species: 517741
type: SpeciesReference

161529
stoichiometry: 1.0
species: 517741
type: SpeciesReference

161770
stoichiometry: 1.0
species: 517746
type: SpeciesReference

160922
stoichiometry: 1.0
species: 517777
type: SpeciesReference

160244
stoichiometry: 1.0
species: 517755
type: SpeciesReference

161310
stoichiometry: 1.0
species: 517747
type: SpeciesReference

161129
stoichiometry: 1.0
species: 517747
type: SpeciesReference

517904
constant: true
value: 1.0
type: Parameter