Long-read, long-reach sequencing workshop
Applying long-read and long-range DNA sequencing technologies in combination or on their own lets us address outstanding biological questions in genome biology, evolution, and diagnostics.
Event series
Cost
Registrations
If you have received an email from the organisers offering you a place at the workshop you can now register and pay online. Registrations will close COB 18 October 2019.
Cost (inc GST)
- $550 for an 'individual slot' (one participant)
- $825 for a ‘pair slot’ (two participants - both can come to all lectures but will have only access to half the hands-on labs, i.e. wet lab OR dry lab)
Registration fees will cover all lab expenses, morning and afternoon teas, and food and drinks for social events. Lunch will not be provided (ANU's Union Kambri is nearby).
*ANU participants please note: We have been advised by ANU Finance that ANU staff and students should not pay for ANU activities (which includes CBA events) using an ANU Purchase Card - you will need to request a journal transfer. Please use the Promotional code 'ANU' at checkout (this will allow you to register without a credit card). Then email CoS Finance (or your relevant college Finance team) and ask them to do a journal transfer for your registration costs to the EBL's account ( r41510-INEG) from your chosen account.
Expression of Interest
Places for the workshop, both wet and dry lab, are strictly limited to 30 attendees. Workshop spots will be distributed based on needs and suitable skill levels ascertained from an Expression of Interest (EoI).
The selection committee will consider diversity of participants in all shapes and colours and how the EoI questions are addressed. We will strive towards a diverse and inclusive workshop experience for everyone.
For each research group, we will limit workshop spots to one person or a pair of participants - ‘groups slots’ that will enable groups to send two group members, each focusing either on wet and dry lab aspects separately. Please indicate on your EoI if you would like to attend with a lab colleague as a 'group slot'.
Expressions of Interest will close on 30 September, 2019. Successful applicants will be notified by 7 October, 2019 and will be sent a link to register and pay online.
For those who will miss out, we apologise yet don’t forget! Lectures are open to all and live streamed and recorded via Zoom. Protocols will be deposited on protocols.io for everyone to reuse, build on and contribute to.
Prerequisites
- Basic understanding of the opportunities arising from novel long-read, long-range DNA/RNA sequencing technologies;
- Prior (basic) hands on experience with molecular biology for the wet lab DNA extraction part; and/or
- Prior experience with basic DNA/RNA sequencing data analysis (desirable, but not required).
Financial Support
There are a limited number of fellowships available worth between $250-500 each to assist with attending the workshop.
These fellowships can be used for off-setting travel costs, registration fees, childcare expenses, partner travel or similar.
Please let us know in your EoI application if you would you like to be considered for a workshop fellowship.
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RegisterDescription
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
Location
RN Robertson Building, Australian National University, Canberra
Venue
The workshop will be held in the RN Robertson Building, 46 Sullivans Creek Road, ANU. We will meet in the Eucalyptus Seminar Room on Monday morning. From the automatic glass front doors (the Little Pickle cafe will be on your right), go directly up the ramp to the second floor and head to the back of the building.
We will provide morning and afternoon tea, and food and drinks for social events. Dietary requirements can be requested at registration. Lunch can be purchased at nearby Kambri (ANU Union).
Guest Wi-Fi
- Network: ANU Secure
- Username: EcoBioLaboratory
- Password: EBL.LongRead
Parking
Information on parking at ANU can be found here. The closest carparks to the Robertson Building are Sullivans Creek carpark (Pay As You Go) and Union Court carpark (Ticket - coins and EFTPOS) - see ANU’s online visitor parking map.
Accomodation
For out-of-town participants we have secured a reduced room rate at the Canberra Rex Hotel ($135/night room & breakfast). The Rex is ~30 min walk from the ANU. If you would like to stay at the Rex please book by 18 October and let them know you are attending the 'Sequencing Workshop at ANU'.