This course type is laboratory

Functional Genomics and Systems Biology

15 - 24 June 2016Wellcome Genome Campus, Hinxton, UK
Deadlines (at 23:59 UTC):
  • Application Deadline Closed

  • Summary

    This intensive laboratory and computer-based training course introduces
    participants to a wide range of post-genome techniques including
    practical experience in performing RNAi experiments, expression profiling
    using the latest platforms and hands on experience with sample
    preparation procedures for Illumina high-throughput sequencing.

    Laboratory work will be complemented by training in state-of-the-art
    approaches to data analysis and interpretation through the use of a range
    of bioinformatics resources and systems biology tools (including R and Bioconductor),
    network analysis (e.g. BioLayout Express3D) and pathway
    modelling. Particular emphasis will be placed upon the integration of
    complementary approaches to ask specific biological questions.

    The course will include seminars by distinguished international speakers
    who will present cutting-edge research in functional genomics and systems
    biology.

    Feedback from the 2015 course:

    “Very well run course. Professional, competent, and approachable
    instructors made the learning environment less formal and facilitated
    useful discussions. Course assistants were helpful with labs/analysis.
    The research interests of participants were broad, and I was able to
    learn new things about other areas.”
    “Thanks for making this course such a wonderful experience!”
    “Great course great instructors!”
    “The hands-on practice in both wet & dry lab are very useful and help
    to understand the whole pipeline.”

  • Programme

    The programme will include lecture and practical
    laboratory/computer-based sessions covering the following topics:

    RNAi
    RNAi has recently emerged as one of the most powerful tools for examining
    gene function. Participants will carry out a high-throughput RNAi screen
    in C.elegans and this will illustrate many of the theoretical
    considerations in designing such large-scale RNAi experiments. Different
    RNAi methodologies will be discussed both for C. elegans in vivo and RNAi
    in mammalian cells in culture. We will also illustrate how RNAi can be
    combined with microarray analysis to identify pathway targets.

    Microarrays
    Practical guidance will be given in the use of commercial microarray
    platforms for the analysis of gene expression. This will involve
    participants working through the labelling of series of RNA samples, and
    their hybridisation to arrays. Participants will be given training in
    many aspects of microarray data analysis and interpretation using a range
    of commercial and academic software tools. Finally, there will be the
    opportunity to discuss the theoretical considerations for microarray
    experimental design and the relative merits of different expression
    profiling platforms, including emerging sequencing technologies.

    Next generation sequencing
    Labwork will involve the preparation and quality control of directional
    small, low amount and single cell (using microfluidics) cDNA 
    libraries for the Illumina  MiSeq and HiSeq2500 genome analyser. Raw
    data will be collected and analysed using sequence alignment methods
    during the course. Further statistical, differential expression and data
    mining procedures will be applied.

    Protein Interactions
    Quantitative mass spectrometry is a central technology in current
    proteomics. Participants will get an overview of proteomics methods and
    will conduct affinity purification mass spectrometry (AP-MS) to
    characterise native protein complexes. This will include experimental
    training in biochemistry techniques including a mammalian tandem affinity
    purification method (TAP).  Shotgun proteomics will be used to
    analyse the sample and instruction on analysing mass spectrometry data
    will be provided. This will be complemented with computational approaches
    for visualising protein interaction networks and integration with other
    data sources.

    Computational Systems Biology
    An overview and discussion of current bioinformatics resources most
    relevant to functional genomics investigations will be provided. These
    will include information on using genome browsers, gene/protein
    annotation, microarray data repositories, protein-protein interaction
    data, and pathway analysis. The course will also provide instruction on
    the integration of data into interaction and regulatory networks and
    systems biology approaches to mining and modelling of these data.

  • Instructors / Speakers

    Course instructors
    Ioannis Ragoussis McGill University and Génome Québec
    Innovation Centre, Canada
    Andrew Fraser University of Toronto, Canada
    Tom Freeman The Roslin Institute, Edinburgh, UK
    Anton Enright European Bioinformatics Institute,
    Hinxton, UK
    Jyoti Choudhary Wellcome Trust Sanger Institute,
    Hinxton, UK

    Guest speakers
    Marc-Emmanuel Dumas Imperial College London, UK
    Donal O’Carroll University of Edinburgh, UK

  • How to Apply

    Prerequisites
    Applicants should be postdoctoral scientists, senior PhD students or
    clinician scientists engaged in relevant research. Applicants with
    molecular biology and/or some cell culture experience will be
    particularly welcome.

    Cost
    The
    course is subsidised by the Wellcome Genome Campus
    Advanced Courses and Scientific Conferences Programme. This is a
    residential
    course and there is a fee of £1065 towards board and lodging
    for non-commercial applicants. Please contact us for the commercial fee.

    Applications
    Applications for this course can be completed online. 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 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

  • Bursaries

    Bursaries
    Advanced Courses are subsidised for non-commercial
    applicants from anywhere in the world. Additional, limited bursaries are
    available (up to 50% 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.

    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.

    Overseas Courses (held outside of the UK)
    A
    limited number of bursaries are available for each course. These are
    awarded on merit to cover travel, accommodation and sustenance. The
    maximum award for travel (economy class) will be £750.

    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.