Abstract:
BACKGROUND:Mechanistic models that describe the dynamical behaviors of biochemical systems are common in computational systems biology, especially in the realm of cellular signaling. The development of families of such models, either by a single research group or by different groups working within the same area, presents significant challenges that range from identifying structural similarities and differences between models to understanding how these differences affect system dynamics. RESULTS:We present the development and features of an interactive model exploration system, MOSBIE, which provides utilities for identifying similarities and differences between models within a family. Models are clustered using a custom similarity metric, and a visual interface is provided that allows a researcher to interactively compare the structures of pairs of models as well as view simulation results. CONCLUSIONS:We illustrate the usefulness of MOSBIE via two case studies in the cell signaling domain. We also present feedback provided by domain experts and discuss the benefits, as well as the limitations, of the approach.
journal_name
BMC Bioinformaticsjournal_title
BMC bioinformaticsauthors
Wenskovitch JE Jr,Harris LA,Tapia JJ,Faeder JR,Marai GEdoi
10.1186/1471-2105-15-316subject
Has Abstractpub_date
2014-09-25 00:00:00pages
316issn
1471-2105pii
1471-2105-15-316journal_volume
15pub_type
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