public model
Short description

This model originates from BioModels Database: A Database of Annotated Published Models (http://www.ebi.ac.uk/biomodels/). It is copyright (c) 2005-2011 The BioModels.net Team.
For more information see the terms of use.
To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.

Related Publication
  • The significance of circulating factor IXa in blood.
  • Butenas S, Orfeo T, Gissel MT, Brummel KE, Mann KG
  • The Journal of biological chemistry , 5/ 2004 , Volume 279 , pages: 22875-22882
  • Department of Biochemistry, University of Vermont, Burlington, Vermont 05405-0068, USA.
  • The presence of activation peptides (AP) of the vitamin K-dependent proteins in the phlebotomy blood of human subjects suggests that active serine proteases may circulate in blood as well. The goal of the current study was to evaluate the influence of trace amounts of key coagulation proteases on tissue factor-independent thrombin generation using three models of coagulation. With procoagulants and select coagulation inhibitors at mean physiological concentrations, concentrations of factor IXa, factor Xa, and thrombin were set either equal to those of their AP or to values that would result based upon the rates of AP/enzyme generation and steady state enzyme inhibition. In the latter case, numerical simulation predicts that sufficient thrombin to produce a solid clot would be generated in approximately 2 min. Empirical data from the synthetic plasma suggest clotting times of 3-5 min, which are similar to that observed in contact pathway-inhibited whole blood (4.3 min) initiated with the same concentrations of factors IXa and Xa and thrombin. Numerical simulations performed with the concentrations of two of the enzymes held constant and one varied suggest that the presence of any pair of enzymes is sufficient to yield rapid clot formation. Modeling of states (numerical simulation and whole blood) where only one circulating protease is present at steady state concentration shows significant thrombin generation only for factor IXa. The addition of factor Xa and thrombin has little effect (if any) on thrombin generation induced by factor IXa alone. These data indicate that 1) concentrations of active coagulation enzymes circulating in vivo are significantly lower than can be predicted from the concentrations of their AP, and 2) expected trace amounts of factor IXa can trigger thrombin generation in the absence of tissue factor.
Michael Schubert

Metadata information

BioModels Database MODEL1108260005
BioModels Database BIOMD0000000362
PubMed 15039440
PubMed 8083241
PubMed 9020158
Taxonomy Homo sapiens
Gene Ontology blood coagulation
Curation status
Name Description Size Actions

Model file

BIOMD0000000362_url.xml SBML L2V4 representation of Butenas2004_BloodCoagulation 61.63 KB Preview | Download

Additional files

BIOMD0000000362.m Auto-generated Octave file 15.14 KB Preview | Download
BIOMD0000000362-biopax2.owl Auto-generated BioPAX (Level 2) 58.45 KB Preview | Download
BIOMD0000000362.sci Auto-generated Scilab file 13.44 KB Preview | Download
BIOMD0000000362.vcml Auto-generated VCML file 87.96 KB Preview | Download
BIOMD0000000362_urn.xml Auto-generated SBML file with URNs 60.43 KB Preview | Download
BIOMD0000000362.png Auto-generated Reaction graph (PNG) 430.99 KB Preview | Download
BIOMD0000000362.pdf Auto-generated PDF file 308.77 KB Preview | Download
BIOMD0000000362-biopax3.owl Auto-generated BioPAX (Level 3) 101.41 KB Preview | Download
BIOMD0000000362.svg Auto-generated Reaction graph (SVG) 93.13 KB Preview | Download
BIOMD0000000362.xpp Auto-generated XPP file 11.07 KB Preview | Download

  • Model originally submitted by : Michael Schubert
  • Submitted: 26-Aug-2011 17:15:02
  • Last Modified: 09-Oct-2014 18:08:33
  • Version: 2 public model Download this version
    • Submitted on: 09-Oct-2014 18:08:33
    • Submitted by: Michael Schubert
    • With comment: Current version of Butenas2004_BloodCoagulation
  • Version: 1 public model Download this version
    • Submitted on: 26-Aug-2011 17:15:02
    • Submitted by: Michael Schubert
    • With comment: Original import of Butenas2004_BloodCoagulation
Curator's comment:
(added: 26 Aug 2011, 17:26:19, updated: 26 Aug 2011, 17:26:19)
Reproduction of figure 1 of the article. Model integrated using PySCeS and plotted with Matplotlib.