MulticellML

Development of a standardized exchange of multicellular models in computational systems medicine

The "MulticellML" alliance is part of the networking fonds to strengthen the interdisciplinary interactions between the five modules of the research and support concept "e:Med - Establishing systems medicine in Germany". A general aim of systems medicine is to better understand the complex processes and structures in cell aggregates, tissues and organs. It is already possible to mathematically model these multicellular processes and structures to spatially simulate the interaction of the various elements.

Several different multicellular models and the associated simulation software have already been developed within the research and funding concept “e:Med - Establishing systems medicine in Germany”. So far, the exchange of these computer models among the different project groups is not possible. Exchange, reproducibility and archiving of these models have hampered by the lack of a standard for the declarative model description and the elements used in them.

Portion of a declarative xml-description for a multicellular model.
© Lutz Brusch

In this joint project, three e:Med groups are working together to develop a declarative description language for multicellular models (multicell markup language = multicellML) and to create an infrastructure for the exchange of models. In addition, a so-called hackathon (a collaborative software and hardware development event) will be organized and a course will be offered for educating the users of MulticellML in existing e:Med projects. Thereby, the multicellML project directly promotes networking and enables the transferability of computer models and software to a wide variety of systems medicine research areas.

 
Subprojects
SP1 Development of a standard and a MulticellML interface to Morpheus
SP2 Development of a standard and archiving of multicellular models
SP3 Development of a standard and a MulticellML interface to Simulator M3

Publications

Mascheroni, P., Lopez Alfonso, J. C., Kalli, M., Stylianopoulos, T., Meyer-Hermann, M. and Hatzikirou, H. (2019). "On the Impact of Chemo-Mechanically Induced Phenotypic Transitions in Gliomas." Cancers (Basel) 11(5). www.ncbi.nlm.nih.gov/pubmed/31137643.