Modelling and simulation tools for clinicians — systems medicine approach

Systems medicine is the holistic approach to a patient’s care. It incorporates evidence-based medicine with the interactions between all components of health, disease, human genetics, environment and behavior.

Current efforts to implement information technology (computer analysis) to solve clinical problems use very limited data sets, despite the vast availability of data from various life science disciplines.

Only be integrating genomic, proteomic and metabolomic data can the knowledge useful for practical clinical applications be obtained and applied to address healthcare and related challenges.

BioBridge proposes to do just that

This project focuses on the application of simulation techniques on top of multilevel data to create models for understanding how molecular mechanisms are dynamically related with complex diseases at the systemic level.

Also by exploring and identifying gaps of information, the project is developing and applying standards to transfer and filter data from existing molecular biology databases as well as data generated from new high-throughput experiments such as microarray, in vivo metabolic profiling and proteomics into models of complex diseases.

BioBridge members have worked directly with SMEs from day one with the expressed aim of creating protocols for commercial use that will standardize the analysis of relevant aspects of disease.


Read more

The consortium brings together selected SMEs with complementary skills in the domains of semantic interoperability, heterogeneous data integration and simulation technologies to develop innovative tools to facilitate the interplay between omics data and clinical information. Synergies are ensured between SMEs and academic teams, as well as product quality assurance through generation of experimental data for model refinement and validation.

BioBridge SMEs and academic teams together will facilitate a translational analysis of the test case: nitroso-redox imbalance of the cardiovascular system. The nitroso-redox disequilibrium causes O2 transport – O2 utilization mismatching at tissue level in highly prevalent chronic disorders (chronic heath failure, chronic obstructive pulmonary disease and diabetes). It has been identified as a common pathway leading systemic effects associated with poor prognosis and high use of healthcare resources. The produced simulation tools may help to identify appropriate biomarkers for non-invasive monitoring and offer a new tool for clinicians.


  • logo_home_nou
  • marcaUPFhome
  • logo
  • logo-mathcore
  • Genfit
  • Knowledge management for Systems Biology: a general and visually driven framework applied to translational medicine
    Maier D, Kalus W, Wolff M, Kalko S G, Roca J, et al. BMC Systems Biology 5:38 (2011) Abstract
    Full text
  • Aus der Forschung an das Krankenbett (From research to bedside)
    Maier D (2010) Vol 02: 72-75
    Full text
  • Creating a Bridge between Modelica and the Systems Biology Community
    Brugard J, Hedberg D, Cascante M, Cedersund G, Gomez-Garrido A, Maier D, Nyman E, Selivanov V and Stralfors P (2009) Proceedings 7th Modelica Conference Como, Italy Abstract
    Full text
  • Making use of integrated data — Knowledge management tutorial
    Maier D (2009) Talk at the Barcelona School on Biomedical Informatics 2009 in Barcelona, Spain
    Full text
  • Integration of transcriptomics data into systems biology modeling in the BioBridge portal
    Gómez–Garrido A, Márquez S, Hernández M, Selivanov V, Cascante M, Villà–Freixa J and Kalko S (2008) in Schriftenreihe Informatik 26. BIRD08 2nd International Conference on Bioinformatics Research and Development. pp. 75-81