Long-read, long-reach sequencing workshop

Novel long-read and long-range DNA sequencing technologies are opening up new research directions. Applying these technologies in combination or on their own lets us address outstanding biological questions in genome biology, evolution, and diagnostics. We are now able to generate chromosome-finished platinum genome assemblies, e.g. the first complete human chromosome (here). We are able to understand the complex evolution of plant pathogens (here). We can detect and track the spread of human (here and here) and plant pathogens (here and here) close to real time.

Yet while these new technologies bring exciting new opportunities they also harbour unique challenges that require specific expertise. For example, long-read sequencing technologies require high purity and quality high molecular weight DNA/RNA to deliver its full potential in genome biology. Similarly, long-range interaction approaches like HiC can be very challenging for non-experts and people working on non-model systems. In addition, downstream computational analysis benefits from detailed understanding of sample prep and is not always straight of the box requiring new domain knowledge.

This five-day intensive community workshop is tailored to raise the boat together by providing:

  • insight into the latest sequencing technologies; 
  • hands-on, world class sample preparation training; 
  • hands-on training on nanopore sequencing; 
  • sequencing run QC; and
  • insight into downstream bioinformatic sequence analysis.

This all will be framed with BBQs and scientific talks by leading experts and companies about applying these latest technologies to interesting biological questions.

In the spirit of community building, all talks will be live-streamed and recorded. All protocols will be deposited on protocols.io. This we hope, will generate a lasting resource for everyone to build on each other's work. 

Download full program here and talks program here


    Objectives for workshop attendees

    • Demonstrate an excellent understanding of the latest sequencing technologies (e.g. PacBio, Nanopore, Longas, HiC, 10x) including how to best combine them.
    • Apply the latest DNA extraction protocols on challenging non-model tissue including important quality control measures.
    • Perform your own nanopore sequencing run and analyze your sequencing output in relation to DNA input quality control measures.
    • Understand which bioinformatic tools to apply to for downstream data analysis. 
    • Design your own best sequencing technology mix to maximise your biological insight within your budget. 

    Expressions of Interest have now closed and successful applicants will be notified by 7 October, 2019.

    Wrap up

    • Our presentation recordings are available here on YouTube
    • This the link to the google shared folder. Please make sure to make a copy if you would like to keep everything. Have a browse. In case you are looking for something you cannot find please let us know.
    • This is the link to the presentations subfolders. The naming convention is as follows: YYYYMMDD_PRESENTER.xxx. Some are missing, so if you want to add yours as well please stick to the naming convention. 
    • Most protocols are up on protocols.io.
    • Tim Kahlke made a great long-read bioinfo tutorial here
    • Group photo