EMBL Australia presents ‘Beyond Imaging: Visualisations, Analysis & Inference’

Three-day light microscopy workshop, 26-28 April 2023.

Venue: Monash University, Monash Sport, 42 Scenic Boulevard, Main Pavilion, Premiers Room

The workshop will focus on:

  • upcoming long-term imaging light-sheet approaches;
  • hardwares, analysis approaches and softwares that enable handling and visualisation of data; and
  • interpreting measurements with mathematical models.

Please see the full program schedule below (subject to minor change).


Travel grants sponsored by Leica Microsystems.         


Event organisers: Senthil Arumugam, Joanna Bischoff, Alex de Marco and James Whisstock.


Imaging Technologies
9:30 am On-site registration and check in opens
10:30 am Welcome Address

EMBL Australia

11:00 am Dr. Gokul Upadhyayula
University of California, Berkeley
Making the invisible visible: measuring and analyzing subcellular dynamics in multicellular systems
12:00 pm Tomasz Bednarz

Industry: NVIDIA

1:00 pm Lunch
2:00 pm Abstract presentation 1
2:30 pm Abstract presentation 2
3:00 pm Abstract presentation 3
3:30pm Coffee and tea break
4:00 pm Leica Microsystems
Sponsor session
4:20 pm Dr. Akanksha Jain
ETH Zurich


Analysis routines and software
10:30 am Dr Kelly Rogers, Dr Lachlan Whitehead, Cindy Evelyn
Facing the challenges of light sheet microscopy to face the challenges of malaria biology: A two-faced story in three parts
11:30 am Coffee and tea break
11:45 am Dr Cameron Nowell
Monash Institute of Pharmaceutical Sciences
An Image is Just the Beginning: Simple to Complex Analysis Pipelines
12:45 pm Lunch
2:00 pm Dr Elvis Pandzic
Quantifying your molecular, organellar and cellular dynamics using image correlative approaches
3:00 pm Michael Morehead
CEO, SyGlass
SyGlass: Visualization, Annotation, and Communication of Very Large Image Volumes in Virtual Reality
4:00 pm Josh Moore
Open Microscopy Environment
OME-Zarr: a cloud-optimized bioimaging file format with international community support
5:30 pm Networking and Dinner


From Measurements to Mechanistic Models
10:30 am Dr Vijay Rajagopal
University of Melbourne
The Cell Physiome: What do we need in a computational physiology framework for predicting single cell biology?
11:30 am Dr Kishan Dholakia
University of Adelaide
Structured Light Sheet Microscopy: advances in application and analysis
12:30 pm Lunch
1:30 pm Dr Yanina Alvarez
University of Queensland
Live imaging morphogenesis in the quail embryo.
2:30pm Abstract Presentation 4
3:00 pm Abstract Presentation 5
3:30 pm Dr Christian Tischer
Big image data visualisation using MoBIE
4:30 pm Workshop close