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EMBL-EBI-Wellcome Trust workshop on In Silico Systems Biology

7-12 June 2015

Wellcome Trust Genome Campus, Hinxton, Cambridge, UK

Application deadline: 23 January 2015

Programme

Systems biology is now an established and fundamental field in life sciences. It has facilitated the move from the identification of molecular ‘parts lists’ for living organisms towards integrating information from different ‘omics’-based approaches with our knowledge on the underlying biochemical mechanisms, to generate and test new hypotheses about how biological systems work. This joint EMBL-EBI-Wellcome Trust workshop will combine lectures on modelling approaches, led discussions to identify the key challenges, opportunities and bottlenecks, and practical sessions on network analysis and network-based modelling.

Please note: This workshop will not cover high-throughput ‘omics’ data analysis methods, e.g. statistical models, GWAS analysis, etc. We will touch on protein networks and data integration, but the focus is more on building predictive and mechanistic models. If you are interested in a course aimed at beginners to integrate data visually using pathway enrichment,, please consider the Networks and Pathways course instead.

Target audience

This workshop is aimed at PhD students and researchers with a minimum of one year’ s experience in the field of systems biology modelling, and who are using systems-based modelling approaches to understand biomedical problems. It is beneficial if participants have experience of using pathway modelling in their work.

Syllabus, Tools and Resources

During this workshop you will learn about:
• Qualitative Modelling: modelling and simulation of interesting networks and pathways, as well as analysis of dynamical systems
• Quantitative Modelling: Chemical kinetics, constraint-based modelling and stochastic simulations
• Network and Pathway Enrichment
• Model sharing: how to encode and annotate models
• Programmatic approaches (e.g. libSBML)

Learning Objectives

After this workshop you should be able to:
• Discuss issues in systems biology including the importance of data standards
• Identify strengths and weaknesses in a variety of systems biology modelling approaches
• Use a range of Bioinformatics software to develop predictive and mechanistic models, and share with others
• Discuss current trends and challenges in systems biology

Scientific Organising Committee

Nicolas Le Novère (EMBL-EBI, UK)
Julio Saez-Rodriguez (EMBL-EBI, UK)
Laura Emery (EMBL-EBI, UK)

Course Trainers (additional trainers TBC)

Nicolas Le Novère (EMBL-EBI, UK)
Julio Saez-Rodriguez (EMBL-EBI, UK)
Kiran Patil (EMBL, Germany)
Pablo Porras (EMBL-EBI, UK)
Javier De Las Rivas (Bioinformatics & Functional Genomics Group,CSIC/USAL, Salamanca, Spain)
Sven Sahle (BioQuant, University of Heidelberg, Germany)
Jörg Stelling (ETH Zurich, Switzerland) 
Sarah Keating (EMBL-EBI, UK)
Laurence Calzone (Institut Curie, France)
Chelliah Vijilahkimi (EMBL-EBI, UK)
Emanuel Goncalves (EMBL-EBI, UK)
Camille Laibe (EMBL-EBI, UK)
Karen Lipkow (University of Cambridge, UK)
Nicolas Rodriguez (EMBL-EBI, UK)

How to apply

Prerequisites
This workshop is aimed at PhD students and researchers with a minimum of one year’ s experience in the field of systems biology modelling, and who are using systems-based modelling approaches to understand biomedical problems. It is beneficial if participants have experience of using pathway modelling in their work.

Cost
The course tuition fees are subsidised by the Wellcome Trust for scientists based anywhere in the world. This is a residential workshop, without exception, and there is a fee of £580 towards accommodation and food for the duration of the workshop.

Bursaries
Limited bursaries are available for non-commercial applicants (up to 50 per cent of fee) and are subject to open competition.
Applications

Application forms for this course can now be completed online. If you have any problems with the online application process, please email us.

Please note: Applications must be supported by a recommendation from a scientific sponsor. This can be your supervisor or head of department. A request for a supporting statement will be sent to your nominated sponsor automatically during the application process. Applicants must ensure that their sponsor provides this supporting statement by the application deadline.

Deadlines
Application deadline: 23 January 2015

Supported by:

European Bioinformatics Institute

Wellcome Trust, Gibbs Building, 215 Euston Road, London NW1 2BE, UK T:+44 (0)20 7611 8888