Spatial Transcriptomics Analysis Workshop

Date

Time

9:30am - 5:30pm AEDT

Venue

Charles Perkins Centre, The University of Sydney

Speakers

Thomas O'Neil

Thomas has been with the Mucosal Immunity lab at WIMR since his honours in 2018. He completed his PhD in 2023 and is now a post-doc in the same lab. Initially, his study involved characterising anogenital T cells by flow cytometry, but having learned analytic programming during COVID, he now studies all aspects of human tissue immunology with a high parameter bioinformatic approach. Specifically, he's been involved in identifying rare immune cell subsets and their role in HIV infection. Recently, he's been developing and applying bioinformatic methods to investigate immune cells in inflamed and uninflamed human tissues using spatial technologies (IMC, Cosmx & Visium). He's particularly interested in describing lymphoid aggregates in colorectal tissues as early sanctuaries for pathogens during viral transmission.

Givanna Putri

Givanna Putri is a postdoctoral researcher at the Walter and Eliza Hall Institute of Medical Research (WEHI). She specialises in developing machine learning algorithms for multi-omics data analysis, bridging cutting-edge computational techniques with complex biological datasets. Givanna earned her PhD in Computer Science from the University of Sydney in 2021. Her work in computational biology has been recognised with awards including the 2019 Dolby scientific paper competition and a recent CASS foundation travel award. Givanna is a certified data carpentry instructor and has run multiple data analysis workshops.

Cathal King

Cathal is a Bioinformatician who specialises in single-cell and spatial transcriptomics analyses. He completed a Master's Degree in Computational Genomics from the University of Galway in Ireland and has worked on several research projects analysing and interpreting modern high-throughput omics experiments. He also has prior experience in science education and with a sequencing biotech company.

John Salamon

John is a computational biologist with interests in data visualisation, network biology, and software development. His PhD from Flinders University was awarded in 2022, and concerned network modelling of tumour heterogeneity. He has also developed software for the visualisation and analysis of spatial transcriptomics data. During his recent postdoctoral position at the Flinders University Brain and Cognition Laboratory, John gained an interest in human-computer interfaces, developing software for research applications including experiments in virtual reality.

Price

Member Price $50.00
Member Student $50.00
Non-Member Price $100.00
Non-Member Student $100.00

Description

Are you interested in leveling up your papers and grants with spatial transcriptomics? Then look no further than the ASI System Immunology Spatial Transcriptomics Analysis Workshop!

Spatial transcriptomics offer an exceptional level of detail, but analysing and interpreting such complex information is challenging. This workshop is designed to introduce both foundational and advanced analytical workflows, applicable to your own data or publicly available datasets. The day will be divided into two hands-on sessions, where participants will actively engage with the material. Attendees are expected to have a basic understanding of R, including how to install/load libraries, set working directories, and use functions.

The first workshop will provide an introduction to using publicly available Visium datasets to enhance papers and grant proposals with qualitative analyses. Participants will learn how to identify datasets relevant to their research, download and process the data, and visualise the results. The goal is for attendees to confidently apply this workflow to their own research projects.

The second workshop will focus on more advanced topics, offering an overview of various spatial transcriptomic technologies and quantitative analysis methods. Participants will work with sub-cellular datasets (Xenium and STomics) to demonstrate the powerful insights that spatial transcriptomic data can provide.

This event will be in-person on 22nd November, the Friday before the annual ASI meeting. It will be held in the McKenzie room (level 6), Charles Perkins Centre, The University of Sydney. Lunch and afternoon networking are included.

Spots are limited to 30 attendees. 

Please bring your own laptop to use during the sessions. We will contact attendees prior to the workshop with a list of R packages you will need to install.

Program

9:15am: Arrival
9:30am-12:30pm: Fundamental workshop analysing Visium data
12:30pm-1:30pm: Lunch
1:30pm-5pm: Advanced workshop analysing Xenium and STomic datasets
5pm onwards: Networking (snacks and drinks provided)

Register by 20th November 23:59 AEDT SOLD OUT

To register, click the green "Register for this Event" button below.

Registrations close 20th November 23:59 AEDT, unless sold out prior.

Contact

Reach out to Felix Marsh-Wakefield if you have any questions.

COVID SAFE POLICY 

• All delegates and exhibitors may be asked to 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. 
• All attendees are encouraged to wear a mask particularly at indoor venues
• All attendees are encouraged to contact the Organising Committees if they exhibit symptoms and consider cancelling their registration or participating remotely to minimise transmission
• 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'.  

🚩  Don't forget! If you are a current ASI member, please click the green button below and log in when prompted on the next page (see black box). This will automatically apply your member-discounted rate. If you do not log in, your member discount will not be applied.

No refunds will be given for incorrect registrations, so please make your selections carefully and check that the total amount payable matches your expectations.

Please proceed through the registration page without delay, otherwise, you will be timed out and will need to log in again to receive your member-discounted rate.