Chaste is a simulation package for computational biology & physiology. With individual-cell based modelling and continuum PDE codes.
Oxford, UK
Joined October 2012
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Last chance to register for the 8-10th January cell based Chaste modelling workshop @UoNCMMB - applications close Friday: chaste.github.io/workshops/2…
🚨 Chaste workshop registration open now!
We'll be holding a Chaste workshop, focussed on our new individual-cell based models and python bindings, at @UniofNottingham Jan 8-10th 2025. Some travel funding available. Apply today!
chaste.github.io/workshops/2…
Chaste Development retweeted
Reminder that @struttlab and I have a PhD studentship available, blending modelling and experiments to understand tissue patterning in a fluctuating environment findaphd.com/phds/project/bb…
Chaste Development retweeted
Interested in #spatial dynamics of cells and their #chemical environment? Check out this new tool developed by our great PhD student @JohnsonConnah ! biorxiv.org/content/10.1101/…
Chaste Development retweeted
After a nice talk on cytoneme-mediated patterning by @kyz1024 (what a nice application of @Chaste_Project!) we conclude the morning with a tour de force by @BlindMath: some modern challenges in pattern formation (featuring Turing cats 🐈)
Chaste Development retweeted
@Chaste_Project we are organising a virtual meeting (1st July) to develop a support network for all Students and Post-Docs using (cell-based) Chaste. If you want to join and get involved sign up! DM for queries. forms.gle/K14RRLqUKp3bs6SP8
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"Seven challenges in the multiscale modeling of multicellular tissues", my review/opinion piece with @DIYOzzy, is now published online: onlinelibrary.wiley.com/doi/… (Special thanks to anonymous reviewer 2 for suggesting 7 additional references, all featuring the same author)
Chaste Development retweeted
🎉 Our new combined experimental and modelling paper of cytoneme-mediated tissue patterning in zebrafish brains is out! 🥳 Simulations powered by @Chaste_Project 🦾
Vangl2 is important for cytoneme formation and paracrine Wnt signaling! @Scholpp-lab @LSI_Exeter @UniofExeter @dmvirshup @kyz1024 @BBSRC
go.nature.com/3wzOGiq
Chaste Development retweeted
@struttlab and I may have money for a postdoc modeller for 6-9 months, starting soon. Some planar polarity, some growth, some @Chaste_Project. Please contact me for details, or forward to anyone who might be interested. Thanks!
Chaste Development retweeted
Thank you for including our recent preprint ➡️doi.org/10.1101/2020.12.29.4… in this week's #mathonco newsletter @mathoncbro 😊
Here's a video from our preprint on colonic #crypt evolution produced with @Chaste_Project.
🟡wild-type 🔵MMR-def. ⚪️APC+/- ⚫️APC-/- cells
This week in Math Oncology 144:
{environmental/neighborhood effects in spheroids, eco-evo in cancer, PKPD combination therapy, evolutionary games, post-hypoxic invasion, and more}
thisweekmathonco.substack.co…
#MathOnco
Chaste Development retweeted
If you're interested in multiscale modelling of multicellular tissues, I've written a short piece with @DIYOzzy on some of the ongoing challenges associated with doing this: preprints.org/manuscript/202…
Chaste Development retweeted
5. We use a cell-based vertex model using @Chaste_Project to confirm that a tangential apical force, as provided by shear stress, can result both in the reported bias in cell shape and in the observed elongating outgrowth.
Chaste Development retweeted
Happy to share our new invited review on cell-based modeling in cancer, in @ASCO's JCO Clinical Cancer Informatics. We include curated collections at @Science_Open, making it a living review. Nicely done, @jmetzcar, @YafeiWang89, and @rheiland!
ascopubs.org/doi/full/10.120…
Chaste Development retweeted
Just published in #JOSS_theOJ: 'Chaste: Cancer, Heart and Soft Tissue Environment' doi.org/10.21105/joss.01848
Chaste Development retweeted
And here comes the (obligatory) plug for @Chaste_Project, and test-driven development - check out the tutorials and wiki GitHub.com/Chaste
A snapshot from this @Chaste_Project simulation by Pras Pathmanathan:
youtube.com/watch?v=eV9ajG-P…
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Version 2019.1 has been released! Includes C++14 support, new features and bug fixes. Supports Ubuntu up to 19.04. Release notes here: chaste.cs.ox.ac.uk/chaste/tu… Download here: github.com/Chaste/Chaste/rel…
We're also happy to announce much-improved docker support, making it even easier to get Chaste working, whatever your favourite OS is. Thanks @b_d_evans!
github.com/Chaste/chaste-doc…
Version 2018.1 has been released. Includes improved C++11support and some bug fixes. Supports Ubuntu up to 18.10. Release notes here: chaste.cs.ox.ac.uk/chaste/tu… Download here: github.com/Chaste/Chaste/rel…
Version 2017.1 has been released. C++11, big infrastructure changes, plus many improvements and bug fixes. Supports Ubuntu up to 17.10. Release notes here: goo.gl/PocNmW Download here: goo.gl/eDYRSB Happy holidays!