This course type is computational

Next Generation Sequencing Bioinformatics

22 - 28 November 2015Wellcome Genome Campus, Hinxton, UK
Deadlines (at 23:59 UTC):
  • Application Deadline Closed

  • Summary

    Next-generation sequencing has become an essential tool in genetic and
    genomic analysis. It is increasingly important for experimental
    scientists to gain the bioinformatics skills required to assess and
    analyse the large volumes of sequencing data produced by next-generation
    sequencers. This new next-generation sequencing bioinformatics course
    aims to equip participants with the essential informatics skills and
    knowledge required to begin analysing next-generation sequencing data and
    carry out some of the most common types of analysis.

    The programme will cover the algorithmic theory and principles of
    bioinformatics, along with practical computational sessions using
    sequence analysis techniques and tools applicable to any species or
    genome size. Accompanying the lecture and practical sessions will be a
    series of seminars by invited speakers, who will highlight their
    ground-breaking work in applications of next generation sequencing.

    Please note: Participants are required to have
    experience of using the Linux operating system. This will be essential
    for participants to fully benefit from the course. The course aims to
    provide a hands-on introduction to bioinformatics for next-generation
    sequencing, and should not be considered a complete education in the
    theoretical and mathematical foundations of the topics.

  • Programme

    The hands-on programme will cover several aspects of next-generation
    sequencing data analysis, including:

    • Introduction to NGS technologies and tour of Sanger Institute facilities

    • Introduction to unix command line

    • Introduction to scripting for bioinformatics

    • NGS data formats and tools

    • Sequence alignment+QC

    • SNP/indel theory and practical

    • Structural variation theory and practical

    • Sequence assembly

    • RNA-seq analysis

    • ChiP-seq analysis

    • Accessing public repositories

    • Participant projects and presentations (final day)
  • Instructors / Speakers

    Course organisers
    Thomas Keane Wellcome Trust Sanger Institute, UK
    Jacqui Keane Wellcome Trust Sanger Institute, UK

    Guest speakers
    Daniel Gaffney Wellcome Trust Sanger Institute,
    UK
    Nick Loman
    University of Birmingham
    Alison Mather
    Wellcome Trust Sanger Institute, UK
    Benedict Paten University of California Santa Cruz,
    USA
    Mike Quail Wellcome Trust Sanger Institute, UK
    
Laura Reinholdt The Jackson Laboratory, USA

  • How to Apply

    Target audience and prerequisites
    Applicants should be postdoctoral scientists, senior PhD students or
    junior faculty members actively engaged in or soon to commence research
    involving next generation sequencing data analysis.

    Linux experience
    This course includes a substantial element of sequence data QC and
    analysis performed on Linux-based computers. To benefit fully from the
    course it is essential that successful applicants are comfortable working
    in a Linux-based environment prior to the course. In particular,
    applicants will be expected to use the command line terminal interface.

    Applicants will need to be familiar with, and able to perform, the
    following:
    Creating, copying, moving and deleting text files and directories,
    modifying file and directory permissions, navigating directory
    structures, examining the contents of text files, executing programs from
    the command line using pipes and output redirection, and compressing and
    decompressing files (using zip or gzip).

    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 £650 towards board and lodging for non-commercial
    applicants. Please contact us for the commercial fee.

    Applications
    Applications for this course can now 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. 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.