This course type is computational

In Silico Systems Biology: Dynamic Modelling of Biological Networks

03 - 08 June 2018Wellcome Genome Campus, Hinxton, UK
Deadlines (at 23:59 UTC):
  • Deadline for Applications Closed
  • Application Deadline Closed

  • Summary

    The use of dynamical mathematical models to understand the function of
    biological systems is at the core of systems biology. Such models have
    facilitated the move from mere identification of molecular ‘parts lists’
    for living organisms towards a more integrated view, based on the
    integration of ‘omics’-based data with our knowledge on the underlying
    biochemical mechanisms. This in turn allows us to generate and test new
    hypotheses about how biological systems work.

    Run jointly with EMBL-EBI, this course will provide participants with
    an introduction to network analysis and 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.

    Target audience
    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 familiarity with the use of bioinformatics tools and data resources
    • A working knowledge of using Linux commands and experience of using a programming language (e.g. Python)
    • An undergraduate level knowledge of molecular and cellular biology

    Feedback from the 2017 course
    “The course has been very useful to me. The instructors were easy to
    reach and all the details were covered. The participants were attended
    individually. I am surely looking forward to attend other suitable
    courses offered by WGC. Thanks !”
    “Learnt a lot here ! Very nice course. Highly recommended.”
    “Thank you for bringing it up together. Thoroughly enjoyed the course and
    my stay in Hinxton.”
    “Thank you to all the instructors and organisers – this course has been
    absolutely invaluable to me.”
    “Thanks a lot for providing, organising and teaching in this course!”

    “Overall the course was excellent”
    “It is really nice course for all level of researchers.”
    “Expert lectures and tutorials from expert presenters.”

  • Programme

    The programme will include lecture and practical computer-based sessions
    covering the following 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
    • Quantitative Modelling: chemical kinetics, constraint-based modelling and stochastic simulations, including spatial representations
    • Model Sharing: how to encode, annotate and distribute models

    Several tools will be used during the course, including
    Cytoscape, OmniPath , GINsim, CellNOpt, COPASI, COBRApy,
    Smoldyn
    and BioModels.

    Learning outcomes
    After the course, participants should be able to:

    • 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
  • Instructors / Speakers

    Scientific Organising Committee
    Nicolas Le Novère Babraham Institute, UK
    Julio Saez-Rodriguez RWTH-Aachen, Germany & EMBL-EBI, UK
    Alexandra Holinski EMBL-EBI, UK

    Instructors
    Nicolas Le Novère Babraham Institute, UK
    Julio Saez-Rodriguez RWTH-Aachen, Germany & EMBL-EBI, UK
    Arnau Montagud Institut Curie, France
    Javier De Las Rivas Cancer Research Institute of Salamanca, Spain
    Emmanuel Goncalves EMBL-EBI, UK
    Sarah Keating EMBL-EBI, UK
    Karen Lipkow University of Cambridge, UK
    Aleksej Zelezniak The Crick Institute, UK
    Pablo Porras EMBL-EBI,  UK
    Nicolas Rodriguez EMBL-EBI, UK
    Sven Sahle University of Heidelberg, Germany
    Joerg Stelling ETH Zurich, Switzerland
    Rahuman Sheriff EMBL-EBI
    Denes Turei EMBL-EBI
    Sarala Wimalaratne EMBL-EBI
    Aleksej Zelezniak The Crick Institute, UK

  • How to Apply

    Prerequisites
    The 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 familiarity with the use of bioinformatics tools and data resources;
    • A working knowledge of using Linux commands, and experience of using a programming language (e.g. Python);
    • An undergraduate level knowledge of molecular and cellular biology

    Applications
    Applications
    can be submitted online
    . Places are limited and will be awarded on
    merit. If you have any problems with the online application process,
    please contact
    us
    .

    Please note: Applications
    must be supported by a
    recommendation from a scientific or clinical
    sponsor (e.g. supervisor,
    line manager, 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.
    Applications without a supporting statement cannot be
    considered.

    Deadlines
    Deadline for Applications: Closed

    Travel visas
    Please contact the
    event organiser if you require a letter to support a travel visa
    application to the UK. Note that letters will only be provided to confirmed attendees.

    Non-European Economic Area or Swiss nationals may be required to have a
    visa to enter the UK.
    Early application is strongly advised, as this process can take 6-8 weeks
    or longer.

    Please visit the following websites for further information:
    UK Border Agency website and information for general visitors and business
    visitors.

  • Cost / Bursaries

    Cost
    The course is subsidised by the Wellcome Genome Campus Advanced Courses
    and Scientific Conferences Programme. This is a residential course and
    the fee is £625, including all accommodation and meals.
    This subsidised fee is available to all non-commercial applicants. Please
    contact us
    for the commercial fee.

    Bursaries
    Advanced Courses are subsidised for non-commercial
    applicants from anywhere in the world. Additional, limited bursaries are
    available (up to a 50% reduction of the course fee) and are awarded on
    merit. If you would like to apply for a
    bursary, please complete the
    bursary section of the online application
    form.

    Please note that both the applicant
    and sponsor are required to provide
    a justification for the
    bursary as part of the application.

    Additional funding opportunities
    Visit
    our Funding webpage
    for additional funding opportunities currently
    available.


    Bursary terms and conditions

    UK Courses (held at the Wellcome Genome Campus, Hinxton,
    Cambridge)
    A
    limited number of bursaries are available for each course. These are
    awarded by the selection committee according to merit. The bursary
    covers a maximum of 50% of the course fee, though in exceptional
    circumstances an application for the total course fee may be considered.
    Where there are many bursary applications, the selection committee may
    issue smaller amounts. We cannot assist with travel costs to attend UK
    courses.

    Bursaries can be applied for as part of the course application form.
    Applicants
    will be notified of a bursary award along with their place on
    the
    course, usually within one month of the application deadline. The
    decision of the selection committee is
    final.