Fribourg2014 - Model of influenza A virus infection dynamics of viral antagonism and innate immune response.

  public model
Model Identifier
BIOMD0000000889
Short description 
This is an ordinary differential equation mathematical model investigating the early responses of human monocyte-derived dendritic cells to infection by two H1N1 influenza A viruses of different clinical outcomes: pandemic A/California/4/2009 and seasonal A/New Caledonia/20/1999.
Format
SBML (L2V4)
Related Publication
  • Model of influenza A virus infection: dynamics of viral antagonism and innate immune response.
  • Fribourg M, Hartmann B, Schmolke M, Marjanovic N, Albrecht RA, García-Sastre A, Sealfon SC, Jayaprakash C, Hayot F
  • Journal of theoretical biology , 6/ 2014 , Volume 351 , pages: 47-57 , PubMed ID: 24594370
  • Department of Neurology and Center for Translational Systems Biology, Icahn School of Medicine at Mount Sinai, New York, NY 10029, United States.
  • Viral antagonism of host responses is an essential component of virus pathogenicity. The study of the interplay between immune response and viral antagonism is challenging due to the involvement of many processes acting at multiple time scales. Here we develop an ordinary differential equation model to investigate the early, experimentally measured, responses of human monocyte-derived dendritic cells to infection by two H1N1 influenza A viruses of different clinical outcomes: pandemic A/California/4/2009 and seasonal A/New Caledonia/20/1999. Our results reveal how the strength of virus antagonism, and the time scale over which it acts to thwart the innate immune response, differs significantly between the two viruses, as is made clear by their impact on the temporal behavior of a number of measured genes. The model thus sheds light on the mechanisms that underlie the variability of innate immune responses to different H1N1 viruses.
Contributors
Submitter of the first revision: Johannes Meyer
Submitter of this revision: Johannes Meyer
Modellers: Johannes Meyer

Metadata information

isDescribedBy (1 statement)
PubMed 24594370

hasTaxon (1 statement)
Taxonomy Homo sapiens

hasProperty (2 statements)
Mathematical Modelling Ontology Ordinary differential equation model
NCIt Interferon

Curation status
Curated
Modelling approach(es)
ordinary differential equation model
Tags

Connected external resources

SBGN view in Newt Editor

Name Description Size Actions

Model files
Fribourg2014.xml SBML L2V4 Representation of Fribourg2014 - Model of influenza A virus infection dynamics of viral antagonism and innate immune response. 112.60 KB Preview | Download

Additional files
Fribourg2014.cps COPASI file of Fribourg2014 - Model of influenza A virus infection dynamics of viral antagonism and innate immune response. 164.36 KB Preview | Download
Fribourg2014.sedml SED-ML file of Fribourg2014 - Model of influenza A virus infection dynamics of viral antagonism and innate immune response. 1.72 KB Preview | Download

  • Model originally submitted by : Johannes Meyer
  • Submitted: Dec 12, 2019 12:07:48 PM
  • Last Modified: Dec 12, 2019 12:07:48 PM
Revisions
  • Version: 2 public model Download this version
    • Submitted on: Dec 12, 2019 12:07:48 PM
    • Submitted by: Johannes Meyer
    • With comment: Automatically added model identifier BIOMD0000000889
Legends
: Variable used inside SBML models


Species
Species Initial Concentration/Amount
STAT

C19618 		1.0 μmol
SOCSm

C97796 		1.0 μmol
IRF7m

C128883 		1.0 μmol
IFNBenv

C20495 		1.0 μmol
TNFam

PR:000000134 		1.0 μmol
STATm

C19618 		1.0 μmol
IFNaenv

C20494 		1.0 μmol
Reactions
Reactions Rate Parameters
=> STAT; STATm compartment*k_28*STATm k_28 = 360.0
=> SOCSm; STATP2n compartment*(r_3*IC1+k_8*STATP2n)*IC2 k_8 = 0.0036; IC2 = 1.0; r_3 = 1.0E-7; IC1 = 1.0
IRF7m => compartment*IRF7m*ln(2)/t_6 t_6 = 1.0
=> IRF7m; STATP2n, IRF7Pn compartment*(k_11*STATP2n+k_14*IRF7Pn)*IC2 IC2 = 1.0; k_11 = 3.6E-4; k_14 = 3.204E-7
=> IFNBenv compartment*gamma*C*v_max217*IFNBenv/(K_217+IFNBenv) C = 500000.0; v_max217 = 72360.0; K_217 = 0.002; gamma = 1.66030217499585E-15
SOCSm => compartment*SOCSm*ln(2)/t_4 t_4 = 0.46
=> TNFam; TFNenv compartment*IC2*(r_1*IC1+r_20*TFNenv/(K_20+TFNenv)) K_20 = 6.0E-4; r_20 = 0.001; IC2 = 1.0; r_1 = 1.0E-4; IC1 = 1.0
STATm => compartment*STATm*ln(2)/t_12 t_12 = 1.0
TNFam => compartment*TNFam*ln(2)/t_9 t_9 = 2.0
=> IFNaenv; IFNam compartment*gamma*C*v_max217*IFNam/(K_217+IFNam) C = 500000.0; v_max217 = 72360.0; K_217 = 0.002; gamma = 1.66030217499585E-15
Curator's comment:
(added: 12 Dec 2019, 12:07:42, updated: 12 Dec 2019, 12:07:42)
Reproduced plot of Figure 5 (top) in the original publication. Model simulated and plot produced using COPASI 4.24 (Build 197).