2022 ASI Systems Immunology SIG Hackathon


13 to 14 September 2022


11am on 13/9/22 to 2.45pm on 14/9/22


Griffith University, Gold Coast Campus



Thomas Ashhurst
Rory Bowden
Kim-Anh Le Cao
Mark Chong
Alistair Forrest
Fabio Luciani
Jessica Ma
Shalin Naik 
Quan Nguyen
Alicia Oshlack
Belinda Phipson
Agus Salim
Alex Swarbrick
Pengyi Yang
Di Yu


Member Price $100.00
Member Student $50.00

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Join us for the 2022 Systems Immunology Hackathon

A Joint ASI – OzSingleCell “Grand Challenge” Workshop


Recent advances in the simultaneous detection of the transcriptome and the proteome using single cell technologies have revolutionised our capacity to understand single cell types and states. This is particularly notable in the field of immunology where decades of flow cytometry technical and computational advances are merging with single cell RNA-seq data. However, many challenges in this new generation of multi-omics data exist in terms of pre-processing, QC, batch correction, cluster identification, feature selection, and suitable user interfaces for non-computational scientists to analyse and visualise their data.

This joint ASI - OzSingleCell hackathon will bring together leaders in cytometry, single cell genomics but also others from disparate fields such as UX/UI engineers, AI/ML, deep learning, graph neural networks, computer vision or image preprocessing, causal inference, etc in a single venue to first understand the challenges in analysis of proteo-genomics, and then work together in small groups to tackle some of these.

Open questions that need answering (or help with) in Immunology include; which cell types are likely to be interacting based on ligand-receptor pairs? how can I determine which are the minimal FACS markers to extract a population identified with scRNA+Protein-seq? Can I light up which cells have a particular pathway (e.g. active TCR signalling), machinery (e.g. antigen processing machinery) or other property? Can I merge FACS and single cell data together to better understand each? Can I more easily interrogate single cell data as a non-coder?

The hope is that by spending time in a room together, new collaborations, connections and tools will emerge that leverage Australia’s capacity in multi-omics analysis and build on our long legacy in immunology and genomics.

The intended outcomes for this workshop are:

  • Seeding of new projects and collaborations
  • Publication of a Grand Challenges summary
  • New tools for visualisation and/or analysis of multi-omics data

Register before Aug 13th 23:59 AEST

🚩 Please register now as there will be a cap of 50 participants to allow for interactions in small groups.

Registrations include:
✔️ Participation in the Hackathon
✔️ Lunches
✔️ Dinner

The workshop will commence at 11am on the Tuesday and conclude at 2:45pm on the Wednesday.


We are planning to arrange a shuttle bus to/from Coolangatta airport. It will depart from the airport at ~9:30 am on the Tuesday and from Griffith University at ~3pm on the Wednesday.


Day 1
  • Introduction and scene setting: goals, challenges
  • 10 min talk per ‘lab’ to discuss skill set, wishlists
  • Open discussion to triage workshop subjects
  • Break out into groups that hopefully contain both wet and dry lab members.
Day 2
  • Continue work in groups
  • Present back to group
  • Continued offsite: To bring a given method to preprint/publication.

Data release:
The multi-omics data sets will be made available prior to the workshop with guidelines on how/what to prepare.
We look forward to welcoming ASI members with an interest in scRNAseq data analysis.

This event has been brought to you by the ASI Systems Immunology SIG:
Shalin Naik, Fabio Luciani, Yang Yang, Mark Chong and Di Yu.


ℹ️ Your health and safety are our priority. This is a COVID-safe event with the following rules to adhere to:

  • All delegates and exhibitors must present a NEGATIVE Rapid Antigen Test before travelling to the conference.
  • All attendees must comply with the Safety Plan advised by public health orders to minimise the risk of transmission of COVID-19 on the premises. 
  • ASI will not cover expenses associated with extra accommodation or alternative transport costs due to isolation requirements should attendees test positive at the event. All attendees should be aware that the events are ‘Attend at your own risk'.  

Disclaimer of Liability 

The Organising Committee will not accept liability for damages of any nature sustained by participants or their accompanying persons or loss of or damage to their personal property as a result of the meeting or related events. 

Should the event be cancelled due to COVID-related restrictions, the Organising Committee shall endeavour to reschedule.  All participants who have paid a registration fee will receive a full refund on the registration fee, but all participants hereby indemnify and hold the Organising Committee unaccountable for all out-of-pocket travel and quarantine -related costs, damages and expenses. 

ℹ️ By registering for and attending the ASI event, you are also indicating your acceptance of the ASI Event Policy.

This is a members-only event, requiring you to log in to the ASI website so we know you are a member. 

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