Next Generation Sequencing Bioinformatics (Montevideo, Uruguay)

18 - 23 February 2018Montevideo, Uruguay
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 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
    course programme will cover the algorithmic theory and principles of
    bioinformatics, with a strong focus on practical computational sessions
    using sequence analysis techniques and tools applicable to any species
    or genome size.

    This course is open to applicants from Latin America and the Caribbean.
    The course is free to attend for non-commercial applicants. Limited
    bursaries to cover travel, accommodation and sustenance costs are also
    available. The course will be taught in English with language support
    from regional instructors.

    Please note:
    The practical sessions will be taught exclusively through Unix/Linux.
    Therefore, participants are required to have some previous exposure of
    using the Linux operating system. This will be essential for
    participants to fully benefit from the course.

    There are numerous online introductory tutorials to the UNIX/Linux
    operating system and commad line, including:
    http://www.ee.surrey.ac.uk/Teaching/Unix
    http://swcarpentry.github.io/shell-novice/

    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.

    Related Overseas Courses in Latin America

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    in our Genomics and Epidemiological Surveillance of Bacterial
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    Email us to be
    notified when this course opens for applications
    .
    Details on previous course content can be found by clicking here.

    Research scientists working on bacterial and eukaryotic pathogens may
    wish to consider our Working with Pathogen
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    course, scheduled for November 2018 in Uruguay.
    Email us to be notified when this course opens for applications
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    Details on previous course content can be found by clicking here.

  • Programme

    The hands-on programme will cover several aspects of
    next generation
    sequencing data analysis, including lectures,
    discussions and practical
    computational sessions covering the following:

    • Introduction to NGS technologies
    • Introduction to the 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
    • RNA-seq analysis
    • ChiP-seq analysis
    • Sequencing data visualisation with the Integrated Genomics Viewer
    • Accessing public sequencing repositories
    • Participant projects and presentations (final day)

    Learning Outcomes
    On completion of the course, participants should be able to:

    • Use the unix command-line
    • Understand how to do QC assessment of high throughput sequencing data
    • Understand the algorithmic concepts behind short read alignment and variant calling, and practical experience using the software
    • Analyse RNA-Seq and CHiP-seq data for measuring abundance
    • Understand the organisation and sequencing data types available in public sequencing repositories
    • Evaluate the strengths, weaknesses and limitations of different bioinformatic approaches
    • Write basic shell scripts for automating bioinformatics tasks
  • Instructors / Speakers

    Course lead instructors
    Thomas
    Keane
    EMBL-European Bioinformatics Institute, UK
    Jacqui
    Keane
    Wellcome Trust Sanger Institute, UK
    Marcela Sjoberg Herrera Pontificia Universidad Católica de Chile

  • How to Apply

    Prerequisites
    This course is open to applicants from Latin America and the Caribbean.
    Applicants should be
    postdoctoral scientists, senior PhD students,
    junior faculty members or
    clinicians/healthcare professionals actively
    engaged in or soon to
    commence research involving next generation
    sequencing data analysis.

    The course will be taught in English with language support from regional
    instructors.

    Linux
    experience: The practical sessions will be taught exclusively
    through
    Unix/Linux. Therefore, participants are required to have some
    previous
    exposure of using the Linux operating system. This will be
    essential for
    participants to fully benefit from the course.

    There are numerous online introductory tutorials to the UNIX/Linux
    operating system and commad line, including:
    http://www.ee.surrey.ac.uk/Teaching/Unix
    http://swcarpentry.github.io/shell-novice/

    Cost
    Overseas courses are free to attend for non-commercial
    applicants. Please contact us for the commercial fee. Limited bursaries
    to cover travel, accommodation and sustenance costs are also available.
    Please see the “Costs/Bursaries” tab for further details.

    Applications
    Applications for this course can be completed 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 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: 3 November 2017

    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.

  • Cost / Bursaries

    Cost
    Overseas courses are free to attend for non-commercial applicants. Please
    contact us for the commercial fee.

    Bursaries

    Limited bursaries to cover travel, accommodation and sustenance costs are
    available 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.