Integrated models, model languages, model repositories, simulation experiments, simulation tools and data visualizations enable facile model reuse with biosimulations

Abstract

More predictive models, such as whole-cell models, could transform biological science, medicine, and bioengineering. To collaborate, investigators will need to reuse and combine each others' simulations. Languages, ontologies, and repositories have been developed to help exchange individual aspects of simulation experiments. Nevertheless, it is difficult to reuse simulations for several reasons: the large numbers of methods, formats, and tools needed for different biological systems and scales; numerous gaps within and between these resources; and limited quality controls.