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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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
Chaste Development retweeted
"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
Chaste Development retweeted
Free for the first 20 registrations! Hosted by @UoNCMMB @UoNMaths teapawt.net/GeroldBaier/status/885…
UK Multiscale Biology Summer School - 11-14 September, U Nottingham multiscalebiology.org.uk/eve… Tutorials: Chaste, Morpheus, FEBio, OpenSimRoot
Chaste Development retweeted
this is really cool. Also I am working on a cancer evolution model. I hope it will work 😊
Chaste Development retweeted
Very nice @Chaste_Project with good applications, congrats! Would have been nice to see invasion into already homeostatic tissue though! teapawt.net/cancerconnector/status… – at Tampa, FL
Cool new paper comparing different cell based models. Will be useful in #mathonco and other fields. journals.plos.org/ploscompbi…
Chaste Development retweeted
A great start to this year's Cell symposium with the Chaste Tutorial workshop #sebmsc16
Chaste Development retweeted
Highly relevant work on comparing cell-based modeling methods. Beautifully exploits the strengths of @Chaste_Project teapawt.net/biorxivpreprint/status…
Comparing individual-based approaches to modelling the self-organization of multicellular tissues biorxiv.org/cgi/content/shor… #bioRxiv
Chaste Development retweeted
Our preprint on numerics of IBM for cell-based sims, incl @Chaste_Project implementation @ruth_baker @FergusCooper teapawt.net/biorxivpreprint/status…
Numerical Analysis of the Immersed Boundary Method for Cell-Based Simulation biorxiv.org/cgi/content/shor… #bioRxiv