Bridging the scales: semantic integration of quantitative SBML in graphical multi-cellular models and simulations with EPISIM and COPASI | Zendy

Thomas Sütterlin | Zendy; Christoph Kolb | Zendy; Hartmut Dickhaus | Zendy; Dirk Jäger | Zendy; Niels Grabe | Zendy

Open Access

Bridging the scales: semantic integration of quantitative SBML in graphical multi-cellular models and simulations with EPISIM and COPASI

Author(s) -

Thomas Sütterlin,

Christoph Kolb,

Hartmut Dickhaus,

Dirk Jäger,

Niels Grabe

Publication year - 2012

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bts659

Subject(s) - sbml , executable , computer science , workflow , markup language , software , programming language , systems biology , theoretical computer science , software engineering , xml , database , bioinformatics , biology , operating system

Biological reality can in silico only be comprehensively represented in multi-scaled models. To this end, cell behavioural models addressing the multi-cellular level have to be semantically linked with mechanistic molecular models. These requirements have to be met by flexible software workflows solving the issues of different time scales, inter-model variable referencing and flexible sub-model embedding.

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