Open Access Open Badges Review

Relational grounding facilitates development of scientifically useful multiscale models

C Anthony Hunt1*, Glen EP Ropella2, Tai ning Lam3 and Andrew D Gewitz4

Author Affiliations

1 Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94143, USA

2 Tempus Dictum, Inc., Portland, OR 97222, USA

3 School of Pharmacy, Chinese University of Hong Kong, Shatin, NT, Hong Kong

4 Institute for Computational and Mathematical Engineering and School of Medicine, Stanford University, Stanford, CA, 94305, USA

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Theoretical Biology and Medical Modelling 2011, 8:35  doi:10.1186/1742-4682-8-35

Published: 27 September 2011


We review grounding issues that influence the scientific usefulness of any biomedical multiscale model (MSM). Groundings are the collection of units, dimensions, and/or objects to which a variable or model constituent refers. To date, models that primarily use continuous mathematics rely heavily on absolute grounding, whereas those that primarily use discrete software paradigms (e.g., object-oriented, agent-based, actor) typically employ relational grounding. We review grounding issues and identify strategies to address them. We maintain that grounding issues should be addressed at the start of any MSM project and should be reevaluated throughout the model development process. We make the following points. Grounding decisions influence model flexibility, adaptability, and thus reusability. Grounding choices should be influenced by measures, uncertainty, system information, and the nature of available validation data. Absolute grounding complicates the process of combining models to form larger models unless all are grounded absolutely. Relational grounding facilitates referent knowledge embodiment within computational mechanisms but requires separate model-to-referent mappings. Absolute grounding can simplify integration by forcing common units and, hence, a common integration target, but context change may require model reengineering. Relational grounding enables synthesis of large, composite (multi-module) models that can be robust to context changes. Because biological components have varying degrees of autonomy, corresponding components in MSMs need to do the same. Relational grounding facilitates achieving such autonomy. Biomimetic analogues designed to facilitate translational research and development must have long lifecycles. Exploring mechanisms of normal-to-disease transition requires model components that are grounded relationally. Multi-paradigm modeling requires both hyperspatial and relational grounding.