Integration of multi-scale biosimulation models via light-weight semantics

John H, Gennari and Maxwell L, Neal and Brian E, Carlson and Daniel L, Cook (2008) Integration of multi-scale biosimulation models via light-weight semantics. In: Pacific Symposium on Biocomputing.

[thumbnail of Gennari-PSB08-ModelMerging.pdf]

Download (319kB) | Preview


Currently, biosimulation researchers use a variety of computational environments and languages to model biological processes. Ideally, researchers should be able to semi- automatically merge models to more effectively build larger, multi-scale models. How- ever, current modeling methods do not capture the underlying semantics of these models sufficiently to support this type of model construction. In this paper, we both propose a general approach to solve this problem, and we provide a specific example that demon- strates the benefits of our methodology. In particular, we describe three biosimulation models: (1) a cardio-vascular fluid dynamics model, (2) a model of heart rate regulation via baroreceptor control, and (3) a sub-cellular-level model of the arteriolar smooth mus- cle. Within a light-weight ontological framework, we leverage reference ontologies to match concepts across models. The light-weight ontology then helps us combine our three models into a merged model that can answer questions beyond the scope of any single model.

Item Type: Book Section
Subjects: All Projects > Biosimulation
Depositing User: Jim Brinkley
Date Deposited: 01 Apr 2010
Last Modified: 24 Jul 2017 23:40

Actions (login required)

View Item View Item