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Träfflista för sökning "WFRF:(Connor Anthony J.) srt2:(2012-2014)"

Sökning: WFRF:(Connor Anthony J.) > (2012-2014)

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1.
  • Johnson, David, et al. (författare)
  • Modular markup for simulating vascular tumour growth
  • 2012
  • Konferensbidrag (refereegranskat)abstract
    • In this paper we present preliminary results of the first application of TumorML being developed outside of the context of the Transatlantic TUmor Model Repositories project (TUMOR). Based on a domain-specific software framework for developing models to simulate vascular tumour growth, we have developed a corresponding domain-specific language (DSL) for use with the framework. The DSL script is directly embedded into TumorML model descriptions serving as an example of how within a single model description document, we can fully describe cancer models as functional components. We introduce the framework that our DSL orchestrates; show fragments of DSL script we have developed to describe tumour-induced angiogenesis; and how these functional model descriptions can be integrated and executed with TumorML markup. 
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2.
  • Johnson, David, et al. (författare)
  • Semantically Linking In Silico Cancer Models
  • 2014
  • Ingår i: Cancer Informatics. - 1176-9351. ; 13:S1, s. 133-143
  • Tidskriftsartikel (refereegranskat)abstract
    • Multiscale models are commonplace in cancer modeling, where individual models acting on different biological scales are combined within a single, cohesive modeling framework. However, model composition gives rise to challenges in understanding interfaces and interactions between them. Based on specific domain expertise, typically these computational models are developed by separate research groups using different methodologies, programming languages, and parameters. This paper introduces a graph-based model for semantically linking computational cancer models via domain graphs that can help us better understand and explore combinations of models spanning multiple biological scales. We take the data model encoded by TumorML, an XML-based markup language for storing cancer models in online repositories, and transpose its model description elements into a graph-based representation. By taking such an approach, we can link domain models, such as controlled vocabularies, taxonomic schemes, and ontologies, with cancer model descriptions to better understand and explore relationships between models. The union of these graphs creates a connected property graph that links cancer models by categorizations, by computational compatibility, and by semantic interoperability, yielding a framework in which opportunities for exploration and discovery of combinations of models become possible.
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