This course type is laboratory

Genomics and Clinical Microbiology

22 - 27 January 2017Wellcome Genome Campus, Hinxton, UK
Deadlines (at 23:59 UTC):
  • Application Deadline Closed

  • Summary

    The future of microbiological diagnostics and infection epidemiology is
    increasingly centred on rapid molecular testing and the application of
    sequencing technology. Practitioners in these disciplines will have to
    process and interpret such data, which is very different from the
    familiar agar-centric clinical microbiology laboratories.

    The Genomics and Clinical Microbiology course combines practical hands-on
    laboratory and bioinformatics work with faculty lectures by, and
    discussions with, leaders in this crucial, exciting, and expanding area.
    The aim is to equip clinical scientists, specialist registrars, and
    consultants in infection disciplines with sufficient understanding of
    these areas to meet these challenges. The course will concentrate on the
    application of cutting-edge molecular and genomic techniques that can be
    implemented now and explore new approaches that will enter practice in
    the near future. The programme will include sample collection and
    preparation, characterization of specimens with a variety of molecular
    techniques, and data interpretation using a variety of practical
    bioinformatic approaches.

    The practical part of the course will provide laboratory
    and computer
    sessions that will examine the application of molecular
    (and
    specifically genomic) techniques to three example clinical problems
    in
    tuberculosis, enteric infections, and encapsulated bacteria. There
    will
    be demonstrations of the uses of different approaches in these
    clinical
    areas. Participants will use data generated on the course to
    make
    clinical and infection control decisions.

    Please note: bursaries are available for clinical and
    academic applicants from anywhere in the world to attend this course, see
    below for details. This includes bursaries for UK registrars. In
    addition, CPD accreditation will be sought from the Royal College of
    Pathologists.

    Feedback from the 2016 course:

    • “This was a well run and very worthwhile course. It has completely changed my view and practice regarding genomics.”
    • “Genomics and Clinical Microbiology is the best course I have ever participated in. It blends clinical and molecular aspects of infectious disease diagnosis & epidemiology in a very clever way.”
    • “Excellent course, highly relevant for clinical microbiologists.”
    • “Great balance of practical and theoretical teaching.”
    • “It was a wonderful course and please keep running it!”
  • Programme

    The course will cover a range of cutting-edge diagnostic techniques including:

    • Design and implementation of real time PCR tests for pathogen detection
    • Molecular approaches to detect multiple pathogens
    • PCR-based typing
    • Whole genome sequencing
    • Mycobacterial typing and molecular bacterial load assays
    • Sequence-based isolate characterisation
    • Bioinformatics and data interpretation
    • Outbreak investigation
    Areas/issues that will be addressed in practical classes, demonstrations or lectures will include:
    • Specimen collection and contamination problems
    • Biological background to WGS approaches
    • Whole genome sequencing platforms and technologies
    • Technique discrimination – demonstrate how to choose the appropriate technique
    • Case studies demonstrating the relative merits of ‘genetics’ and ‘culture’
    • Developing a molecular diagnostic service

    Learning outcomes
    Having completed the course participants will have acquired:

    • An
      advanced understanding of the theoretical bases of pathogen genomics,
      including the application of population genomics to epidemiology and
      clinical microbiology
    • An extensive appreciation of the currently available technologies for whole genome analysis and likely future developments
    • A
      thorough knowledge of the clinical applications of genomics in
      developing diagnostics and how these can be deployed and exploited in
      clinical settings
    • An extensive overview of the latest research and development in the area, informed by state-of-the-art examples.

    In addition, participants will have performed:

    • A wide range of molecular analyses, including whole genome sequencing on diverse platforms
    • A wide range of molecular diagnostic techniques utlilising genomics
    • Data analysis using a wide variety of software, including variant mapping and gene-by-gene analysis
    • An
      investigation of three clinical scenarios that illustrate how the
      techniques, software, and theoretical approaches covered can be applied
      in real-world situations.

    CPD Accreditation
    CPD accreditation will be sought from the Royal College of Pathologists.

  • Instructors / Speakers

    Course instructors
    Martin
    Maiden
    University of Oxford, UK
    Stephen
    Gillespie
    University of St Andrews, UK
    Cath
    Arnold
    Public Health England, UK
    Claire Jenkins Public Health England, UK

    Guest speakers
    Xavier
    Didelot
    Imperial College
    London, UK
    Jennifer
    Gardy
    BC Centre for
    Disease Control, Canada
    Nick
    Loman
    University of Birmingham, UK
    Leila Luheshi PHG Foundation, UK
    Julian
    Parkhill
    Wellcome Trust Sanger Institute, UK
    Estée
    Torok
    University of Cambridge, UK

  • How to Apply

    Prerequisites
    Applicants should be clinical scientists, specialist registrars or
    consultants in medical microbiology.

    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 £760 towards board and lodging for
    non-commercial applicants. Please contact us for the commercial fee.

    Additional limited bursaries are available (up to 50%
    of the course fee)
    and are awarded on merit. Please see the “Bursaries”
    tab for details.

    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

  • Cost / Bursaries

    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 £760 towards board and lodging for
    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 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.