A1 Vertaisarvioitu alkuperäisartikkeli tieteellisessä lehdessä
Refinement-based modeling of the ErbB signaling pathway
Tekijät: Bogdan Iancu, Usman Sanwal, Cristian Gratie, Ion Petre
Kustantaja: Elsevier Ltd.
Julkaisuvuosi: 2019
Journal: Computers in Biology and Medicine
Vuosikerta: 106
Aloitussivu: 91
Lopetussivu: 96
Sivujen määrä: 6
ISSN: 0010-4825
eISSN: 1879-0534
DOI: https://doi.org/10.1016/j.compbiomed.2019.01.016
The construction of large scale biological models is a laborious task, which is often addressed by adopting iterative routines for model augmentation, adding certain details to an initial high level abstraction of the biological phenomenon of interest. Refitting a model at every step of its development is time consuming and computationally intensive. The concept of model refinement brings about an effective alternative by providing adequate parameter values that ensure the preservation of its quantitative fit at every refinement step. We demonstrate this approach by constructing the largest-ever refinement-based biomodel, consisting of 421 species and 928 reactions. We start from an already fit, relatively small literature model whose consistency we check formally. We then construct the final model through an algorithmic step-by-step refinement procedure that ensures the preservation of the model's fit.