In Silico Systems Biology


 Sunday 9 Friday 14 July 2017


European Bioinformatics Institute (EMBL-EBI) - Training Room 1 - Wellcome Genome Campus, Hinxton, Cambridge,  CB10 1SD, United Kingdom

Application deadline: 

Friday March 24 2017


Open application with selection

Registration fee: 


Registration closed

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The analysis of biological networks and the development of dynamical models to understand their function are at the core of systems biology. They have facilitated the move from the identification of molecular ‘parts lists’ for living organisms towards the integration of information from different ‘omics’-based approaches with our knowledge on the underlying biochemical mechanisms, in order to generate and test new hypotheses about how biological systems work.

Run jointly with Wellcome Trust, this course will provide participants with an introduction to network analysis and an in-depth training in the main modelling approaches used in systems biology. The course will combine lectures, hands-on computational practical sessions and group activities, and there will be opportunity for discussion of current trends in the field.


This course is aimed at PhD students and researchers who already have some experience of using systems-based modelling approaches to understand biological and biomedical problems. This is an advanced course, and participants are expected to have:

  • A working knowledge of using Linux commands, and experience of using a programming language (eg Python or Perl)
  • An undergraduate level knowledge of molecular and cellular biology

Syllabus, tools and resources

  • Network analysis and pathway Enrichment
  • Qualitative Modelling: reconstruction, modelling and simulation of systems using logic approaches, and analysis of their dynamical properties
  • Quantitiative Modelling: Chemical kinetics, constraint-based modelling and stochastic simulations, including spatial representations
  • Model sharing: how to encode, annotate and distribute models


  • Identify strengths and weaknesses in a variety of systems biology modelling approaches
  • Use a range of bioinformatics and modelling software to develop predictive and mechanistic models
  • Access, query and retrieve models from public repositories for systems biology
  • Identify an appropriate modelling approach for a given biological question and dataset