This course type is laboratory

Next Generation Sequencing

21 - 28 April 2017Wellcome Genome Campus, Hinxton, UK
Deadlines (at 23:59 UTC):
  • Application Deadline Closed

  • Summary

    Next-generation sequencing has become the premier tool in genetic and
    genomic analysis. This laboratory-based course is directed at scientists
    who will be generating and interpreting sequence information in their
    research and wish to gain a better understanding of the techniques
    involved and their applications.

    The course will include theoretical and practical information on all of
    the next-generation sequencing systems available and those on the near
    horizon. The laboratory element will cover a mix of technologies that
    will be determined nearer the time, but will be chosen from platforms
    including, PacBio, Illumina (Miseq, HiSeq) and Oxford Nanopore MinION.
    One aim of the course is to allow participants to make informed decisions
    about which technology to apply to solve specific research questions they
    may face in the future. A variety of applications will be covered (e.g.,
    RNA-Seq, target enrichment, bacterial sequencing, cancer genomics, human
    variation analysis) along with all the basic techniques of
    post-sequencing analysis (QC, alignment, assembly, variant calling,
    etc.).

    Please note: For the data analysis components of the
    course, applicants will require a working knowledge of the Linux
    operating system. This can be obtained by various methods and will be
    enforced. This course is not meant to replace the
    manufacturers’
    training normally supplied with new instruments, nor is
    it intended for
    applicants interested solely in data analysis (for which we offer a
    separate Next Generation Sequencing Bioinformatics course).

    Feedback from the 2016 course

    • “The course was excellent and I got a huge amount out of it that is directly applicable to what I am doing, as well as useful for my future career. Evening activities were a lot of fun. In general, a very enjoyable and productive experience.”
    • “It was really a great opportunity for me to be part of the training. i really gained a lot of knowledge. thanks to the organizers and the instructors, you are all wonderful.”
    • “Excellent Course.”
    • “Thank you very much for the course. Everything was much better than my most optimistic expectations.”
    • “I’m very impressed- the whole course was incredibly well thought out and organised. Thanks to the course organisers.”
  • Programme

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

    Library Prep

    • Making libraries from samples (theory and practical sessions)

    Sequencing

    • Overview: Motivation and fundamental concepts
    • Detailed description of prominent sequencing technologies: current and future (3rd generation) platforms
    • Hands-on laboratory work: preparing chips for sequencing and performing sequencing runs on various platforms

    Data analysis

    • Data QC: How to determine if a run has performed well
    • Alignment to a reference, de-novo assembly, SNP and structural variant-calling of next generation DNA and RNA data
    • IT and data storage problems

    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.

  • Instructors / Speakers

    Course instructors
    Tony
    Cox
    Wellcome Trust Sanger Institute, UK
    Michael
    Quail
    Wellcome Trust Sanger Institute, UK
    Jacqui
    Keane
    Wellcome Trust Sanger Institute, UK

    Guest speakers
    Daniel
    Gaffney

    Wellcome Trust Sanger Institute, UK
    Elizabeth
    Murchison
    University of Cambridge, UK
    Julian
    Parkhill
    Wellcome Trust Sanger Institute, UK

  • How to Apply

    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 instrumentation. Please
    note
    : This course is not meant to replace the
    manufacturers’
    training normally supplied with new instruments, nor is
    it intended for
    applicants interested solely in
    next-generation sequencing
    bioinformatics.

    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, 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 £1040 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 further information.

    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

    Travel visas
    Please contact the
    event organiser if you require a letter to support a
    travel visa
    application. Note that letters will 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
    there is a fee of £1040 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.