Systematic Models for Biological Systems Engineering Training Network

The training programme and approach pursued by the SyMBioSys consortium has been designed to address the following main concerns:

• train young researchers with cross-disciplinary skills encompassing biological experimentation, mathematical modeling and optimization, as well as software engineering, to enhance understanding of biological processes;
• achieve real understanding and adequate communication between the different research communities involved (systems and software engineers, modelers and biologists). The aim is to reinforce the coherence in biological systems engineering field, ending up with complementarities and future activities;
• strengthen the academic-industrial links in biological systems engineering area. The SyMBioSys approach is promising to enormously benefit White and Red Biotech companies by providing applications that help anticipate project failure at an early stage and shorten product development timeframes;
• provide a platform for young researchers to enhance their network, knowledge and career opportunities. SyMBioSys will address these concerns through the training of 15 ESRs, who will be moving between the academic and industrial sectors, within the dynamic environment of 5 universities, 2 research centres and 4 companies. The ESRs will aim at solving cross-disciplinary problems supervised by researchers of different backgrounds.

ESR N.	Project Title	Full name
ESR1	Unraveling the main control structure of the yeast core carbon metabolism	Joana Saldida Alves
ESR2	Capturing Heterogeneity across many scales in Biosystems using Population Balance Modelling	Romuald Győrgy
ESR3	Modeling of cell signaling via hybrid networks	Aurelien Dugourd
ESR4	Metabolism in mathematical modelling and bioprocess development for mesenchymal stem cell osteogenic differentiation in 2D and 3D cultures	Michail Klontzas
ESR5	Identification of logic-based dynamic models of biochemical networks	Enio Gjerga
ESR6	Systematic reverse-engineering methods for dynamic model identification, selection and discrimination	Jake Pitt
ESR7	Optimal control methods to explain and predict operating principles in biochemical pathways	Nikolaos Tsiantis
ESR8	Optimal metabolic regulation through cell signaling	Roman Rainer
ESR9	Drug target detection as optimality problem	Olufemi Ademola Bolaji
ESR10	Algorithms and software tools for calibration of biological process models	Lucian Gomoescu
ESR11	Application of the new algorithms and software tools to biological test cases, from the analysis of metabolic and signaling networks to metabolic engineering and biomedical problems	Sara Barbosa
ESR12	Development of bi-level strain optimization algorithms and software tools	Osvaldo Kim
ESR13	Model-based optimization for personalized leukemia treatment using an integrated experimental / computational platform	Jose Ferreira Rodrigues De Morais
ESR14	Integration of signaling models with clinical databases and proteomic, phopshoproteomic, transcriptomic, and genomic data	Asier Antoranz
ESR15	Large-scale kinetic model of human metabolism	Maria Masid Barcon