Modern Approaches to Processing Single Particle CryoEM Data: Micrographs to PDB

In this week-long hands-on workshop, attendees will be immersed in a High Performance Computing environment and will learn the current approaches to rapidly go from electron micrographs all the way to creating a high quality PDB molecular interpretation of the results.

The material covered will be:

• Linux HPC environment and GPU computing
• Setting up consistent cryoEM data structures
• Motion correction
• CTF estimation
• AI techniques for particle picking
• ab initio 3D model generation
• Particle homogenization (2D and 3D classification techniques)
• 3D variability analysis and how it can inform further 3D refinement strategies
• High resolution 3D refinement strategies
• Advanced 3D masking
• Molecular Dynamics Flexible Fitting (MDFF) for PDB model fitting
• Realspace refinement strategies for PDB finalization
• PDB validation

The softwares covered will include the most up to date versions of:

• RELION
• CRYOSPARC
• EMAN
• ChimeraX / iSOLDE
• Phenix
• Coot

All attendees will have priority access to a high-performance computing system during the course and will only be required to bring their own laptop to access it. No additional software will be required on your laptop.

The course will be fully catered for with morning tea, lunch and afternoon tea provided each day. The price does not include accommodation, but the Monash Institute of Pharmaceutical Sciences is centrally situated to the city of Melbourne and we can provide suggestions of places to stay that are close either by public transport or within walking distance.

Additional Information:

• Places are limited – maximum of 16 attendees only
• Please bring your own laptop – no additional software is required
• Deadline: Please secure your place to the workshop by 5:00 PM, June 23rd, 2025
• Attendees are responsible for securing their own accommodation. If required, please contact us for places nearby

Download flyer here

Getting here from the City:

The Number 19 tram stops outside – get off at “Walker St/Royal Pde, stop #16”. This tram route runs between North Coburg and the City via Sydney Rd/Royal Pde/Elizabeth St.

To travel on public transport, you require a Myki card, these need to be purchased prior to travel, they cannot be purchased on the tram. For details where to purchase https://www.ptv.vic.gov.au/more/travelling-on-the-network/visiting-melbourne-and-victoria/

There is a free tram zone however we are outside of this zone, you must have a valid ticket.

Accommodation:

There is a range of 3 and 4 star accommodation nearby. Please note prices are only approximate, they have not been quoted. These are suggestions only based on ease of getting to the campus. Please contact the hotel directly or your preferred online hotel booking website.

*Based on Google maps (off peak)

** times will vary at peak hour