Section outline

  • Venue: Streamed in Zoom
    Schedule: from 9h15 to 17h15, with a lunch break and 2 coffee breaks.

    PARTS I & II: NGS BIOINFORMATICS PIPELINE & QUALITY CONTROL (QC)

    09:15-09:35 Introduction: tumor board context, example with lung cancer explaining spectrum of detectable alterations. Dr. Timothée Olivier

    09:35-10:05 Introduction to NGS technologies (Dr. Aitana Lebrand)

    10:05-10:45 Overview of a bioinformatics analysis pipeline and basic QC (Dr. Aitana Lebrand)

    10:45-11:00 Break

    11:00-12:30 Hands-on on Galaxy: using Galaxy to filter variants based on quality filters and variant allele frequency. (Dr. Yann Christinat)

    12:30-13:30 Break


    PART III: ANNOTATION

    13:30-14:45 Clinical significance: pathogenicity & actionability. Predict variant effect and impact using bioinformatics tools. Annotation using literature and other public databases. (Dr. Aitana Lebrand)

    14:45-15:00 Break

    15:00-17:00 Hands-on on variant annotation. (Dr. Yann Christinat)

    17:00-17:15 Wrap-up of the course and take-home messages. (Dr. Yann Christinat & Dr. Aitana Lebrand)