Title here
Summary here
2025 Nottingham Workshop
We are pleased to announce a workshop on cell-based modelling with Chaste, an open-source multi-scale framework for the computational modelling of biological systems.
Event Details
When
Wednesday 8th January to Friday 10th January 2025.
Where
Dearing Building
Jubilee Campus
Nottingham
NG8 1AW
https://maps.app.goo.gl/zWxN1PKRQBBqCRhTA
Background
The Chaste (Cancer, Heart and Soft-Tissue Environment) software library consists of object-oriented C++ code that is extensible, reliable, robust, and well-tested. The library enables general computational biology simulations to be undertaken and includes tools to visualise, analyse, automatically curate, and store simulation results, thus expediting model development.
Workshop Aims
- Introduce Chaste’s basic functionality.
- Provide hands-on training on implementing simulations of model biological systems.
- Provide hands-on training on PyChaste, the Python bindings for Chaste.
- Exhibit the use of Chaste by various researchers in their work.
- Guide participants on applying Chaste to novel problems, including participants’ own research.
- Showcase the latest features that have been added to the Chaste codebase.
Audience
This workshop is aimed at anyone with an interest in developing or learning more about multi-scale computational cell-based models. Participants at all career stages are welcome. In order to get the most out of the workshop, participants should have a working knowledge of C++ and some experience of mathematical modelling in the life sciences. On completion of the workshop, participants will be equipped with the skills to use Chaste to develop a simulation of a biological problem related to their own research.
Timetable
Wednesday 8th January
| Start | End | Description |
|---|---|---|
| 10:00 | 11:00 | Arrivals |
| 11:00 | 11:15 | Welcome address |
| 11:15 | 11:30 | Introductions (1 minute each, optional slide) |
| 11:30 | 12:30 | Overview of cell-based modelling |
| 12:30 | 13:30 | Lunch |
| 13:30 | 14:00 | PyChaste for cell-based modelling |
| 14:00 | 15:00 | Hands-on session [ PyChaste for cell-based modelling ] |
| 15:00 | 15:30 | Chaste on GPUs |
| 15:30 | 16:45 | Hands-on session [ Installing Chaste and running tests ] |
| 16:45 | 17:00 | Early feedback session |
Thursday 9th January
| Start | End | Description |
|---|---|---|
| 9:30 | 9:55 | Scientific case study #1: James Osborne (Melbourne) |
| 10:00 | 10:50 | Chaste for cell-based modelling: latest features and future plans |
| 11:10 | 11:40 | C++ Chaste for cell-based modelling (with user projects) |
| 11:40 | 12:30 | Hands-on session [ C++ Chaste for cell-based modelling (with user projects) ] |
| 12:30 | 13:30 | Lunch |
| 13:30 | 14:30 | Hands-on session [ C++ Chaste for cell-based modelling (with user projects) ] |
| 14:30 | 15:00 | Stream A: Immersed Boundary Method in C++ and Python Stream B: Cardiac Modelling |
| 15:00 | 16:30 | Stream A: Hands-on session [ Immersed Boundary Method in C++ and Python ] Stream B: Hands-on session [ Cardiac Modelling ] |
| 16:30 | 17:00 | Scientific case study #2: Martin Homer (Bristol) |
| 19:00 | Dinner |
Friday 10th January
| Start | End | Description |
|---|---|---|
| 9:30 | 10:00 | Scientific case study #3: Jochen Kursawe (St. Andrews) |
| 10:00 | 10:30 | Modelling cell-environment feedback |
| 10:30 | 11:40 | Hands-on session [ Modelling cell-environment feedback ] |
| 11:40 | 12:00 | How to get further support / how to contribute to Chaste |
| 12:00 | 12:30 | Scientific case study #4: Philip Murray (Dundee) |
| 12:30 | 12:45 | Retrospective: lessons learned, future plans with Chaste |
| 12:45 | 13:00 | Feedback Survey |
| 13:00 | 14:00 | Lunch |
| 14:00 | 16:00 | Bring your own project: get support to code up a model related to your research |
| 16:00 | Departures |
Registration
Admission to the workshop is free. There is also funding to cover accommodation and travel within the UK for students and early career researchers.
Registration is now closed. For a list of upcoming workshops, please see https://chaste.github.io/workshops/.
We look forward to your participation!
Venue and Accommodation
The workshop will be held on the University of Nottingham Jubilee Campus.
Transport Links
Information on public transport in Nottingham can be found on the following page: https://www.nottingham.ac.uk/about/visitorinformation/public-transport-to-our-campuses.aspx
Hotel Information
If you are arranging your own accommodation, there is a wide selection of hotels available in Nottingham. A number of reasonably priced options can be found below.
Please note that accommodation you book yourself is not eligible for a bursary – if you are applying for an accommodation bursary and your application is successful (we anticipate that there should be funding for most attendees), suitable accommodation will be reserved for you at the University of Nottingham.
- Nottingham Venues
- Travelodge Nottingham Wollaton Park
- Premier Inn Nottingham City Centre (Chapel Bar)
- Travelodge Nottingham Central
- Premier Inn Nottingham Castle Marina
- Holiday Inn Nottingham
For additional information, please contact Kwabena Amponsah<kwabena.amponsah1@nottingham.ac.uk>.
Supported by
BBSRC Grant BB/V018647/1