Model Identifier
BIOMD0000000755
Short description 
its a nine species reduced model of Hockin 2002. Model uses different level of reduction (5,7,9,11) and testing the best alignment with Hockin model results
Format
SBML (L2V4)
Related Publication
  • Automated reduction of blood coagulation models. Click here to expand
  • Kirk B Hansen, Shawn C Shadden
  • International journal for numerical methods in biomedical engineering , 10/ 2019 , Volume 35 , Issue 10 , pages: e3220 , PubMed ID: 31161687
  • Department of Mechanical Engineering, University of California, Berkeley, Berkeley, California.
  • Mathematical modeling of thrombosis typically involves modeling the coagulation cascade. Models of coagulation generally involve the reaction kinetics for dozens of proteins. The resulting system of equations is difficult to parameterize, and its numerical solution is challenging when coupled to blood flow or other physics important to clotting. Prior research suggests that essential aspects of coagulation may be reproduced by simpler models. This evidence motivates a systematic approach to model reduction. We herein introduce an automated framework to generate reduced-order models of blood coagulation. The framework consists of nested optimizations, where an outer optimization selects the optimal species for the reduced-order model and an inner optimization selects the optimal reaction rates for the new coagulation network. The framework was tested on an established 34-species coagulation model to rigorously consider what level of model fidelity is necessary to capture essential coagulation dynamics. The results indicate that a nine-species reduced-order model is sufficient to reproduce the thrombin dynamics of the benchmark 34-species model for a range of tissue factor concentrations, including those not included in the optimization process. Further model reduction begins to compromise the ability to capture the thrombin generation process. The framework proposed herein enables automated development of reduced-order models of coagulation that maintain essential dynamics used to model thrombosis.
Contributors
Submitter of the first revision: Krishna Kumar Tiwari
Submitter of this revision: Lucian Smith
Curator: Lucian Smith
Modeller: Krishna Kumar Tiwari

Metadata information

is (2 statements)
BioModels Database BIOMD0000000755
BioModels Database MODEL1907180004

isDescribedBy (1 statement)
PubMed 31161687

hasTaxon (1 statement)
Taxonomy Homo sapiens

hasProperty (2 statements)
Gene Ontology blood coagulation
Mathematical Modelling Ontology Ordinary differential equation model

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

Connected external resources

Visualisation of this model on Menelmacar platform