Vincent Noël
@vincent-noel.fr
Research scientist in the Computational System Biology of Cancer team at Institut Curie, Visiting Scientist in São Paulo
Modeling and simulating biological systems with multiscale frameworks.
#MaBoSS, #PhysiBoSS developer
Modeling and simulating biological systems with multiscale frameworks.
#MaBoSS, #PhysiBoSS developer
Pinned
Vincent Noël
@vincent-noel.fr
· Nov 8
Our #PhysiBoSS tutorial is now available at Briefings in Bioinformatics: academic.oup.com/bib/article/.... Learn how to build #multiscale models with #Boolean intracellular signaling, without any code, using #PhysiCell Studio! Showing three simple examples, and an update of Ruscone's invasion model👇
Reposted by Vincent Noël
Really excited to share our new @cellpress.bsky.social Cell paper with @fertiglab.bsky.social and colleagues. 1/n
www.cell.com/cell/fulltex...
@jktgfoundation.bsky.social @itcrtraining.bsky.social @smbmathbiology.bsky.social #mathbio #mathonco @mathonco.bsky.social @deniswirtz.bsky.social
www.cell.com/cell/fulltex...
@jktgfoundation.bsky.social @itcrtraining.bsky.social @smbmathbiology.bsky.social #mathbio #mathonco @mathonco.bsky.social @deniswirtz.bsky.social
Human interpretable grammar encodes multicellular systems biology models to democratize virtual cell laboratories
We developed a plain text modeling language—a cell behavior hypothesis grammar—to
easily build virtual cell models and connect them to data, helping scientists to unlock
the hidden dynamics of tissues...
www.cell.com
July 28, 2025 at 2:20 PM
Really excited to share our new @cellpress.bsky.social Cell paper with @fertiglab.bsky.social and colleagues. 1/n
www.cell.com/cell/fulltex...
@jktgfoundation.bsky.social @itcrtraining.bsky.social @smbmathbiology.bsky.social #mathbio #mathonco @mathonco.bsky.social @deniswirtz.bsky.social
www.cell.com/cell/fulltex...
@jktgfoundation.bsky.social @itcrtraining.bsky.social @smbmathbiology.bsky.social #mathbio #mathonco @mathonco.bsky.social @deniswirtz.bsky.social
Reposted by Vincent Noël
Last week to register ! Don't miss this great opportunity
We are welcoming applications to the 8th edition of the International Curie Course on Computational Systems Biology of Cancer, to be held in Paris, September 22-26, 2025. This year the focus will be on multimodal data analysis and network modelling to master cancer hallmarks. 👇
tinyurl.com/57d4ed2v
tinyurl.com/57d4ed2v
Computational Systems Biology of Cancer - 8th edition - Multimodal data analysis and network modelling to master cancer hallmarks | Institut Curie Advanced Training
The course will gather leading speakers from different fields in cancer systems biology, in cancer research and in clinics. The invited speakers will expose various approaches for omics, imaging, clin...
training.institut-curie.org
June 10, 2025 at 2:00 PM
Last week to register ! Don't miss this great opportunity
Two PhD positions to work on important and cool topics. And to make it even better, with some very nice and good people.
📢 Exciting news! We will soon open two PhD positions at @i2sysbio.bsky.social @csic.es, in research projects in collaboration with the @bsc-cns.bsky.social. Both are related to tools to simulate biological tissues. Here’s the description of the open positions. #PhDpositions #PhDOpportunities
👇
👇
May 12, 2025 at 5:52 PM
Two PhD positions to work on important and cool topics. And to make it even better, with some very nice and good people.
Reposted by Vincent Noël
We are welcoming applications to the 8th edition of the International Curie Course on Computational Systems Biology of Cancer, to be held in Paris, September 22-26, 2025. This year the focus will be on multimodal data analysis and network modelling to master cancer hallmarks. 👇
tinyurl.com/57d4ed2v
tinyurl.com/57d4ed2v
Computational Systems Biology of Cancer - 8th edition - Multimodal data analysis and network modelling to master cancer hallmarks | Institut Curie Advanced Training
The course will gather leading speakers from different fields in cancer systems biology, in cancer research and in clinics. The invited speakers will expose various approaches for omics, imaging, clin...
training.institut-curie.org
March 18, 2025 at 3:36 PM
We are welcoming applications to the 8th edition of the International Curie Course on Computational Systems Biology of Cancer, to be held in Paris, September 22-26, 2025. This year the focus will be on multimodal data analysis and network modelling to master cancer hallmarks. 👇
tinyurl.com/57d4ed2v
tinyurl.com/57d4ed2v
Reposted by Vincent Noël
PhysiCell 1.14.2 will release later this afternoon.
Mostly bugfixes and minor refinements, but also exciting new work by Elmar Bucher prepping for a future "PhysiGym" addon for RL etc.
Major thanks to @danielrbergman.bsky.social for numerous PRs! Watch @physicell.bsky.social for the release.
Mostly bugfixes and minor refinements, but also exciting new work by Elmar Bucher prepping for a future "PhysiGym" addon for RL etc.
Major thanks to @danielrbergman.bsky.social for numerous PRs! Watch @physicell.bsky.social for the release.
January 20, 2025 at 8:56 PM
PhysiCell 1.14.2 will release later this afternoon.
Mostly bugfixes and minor refinements, but also exciting new work by Elmar Bucher prepping for a future "PhysiGym" addon for RL etc.
Major thanks to @danielrbergman.bsky.social for numerous PRs! Watch @physicell.bsky.social for the release.
Mostly bugfixes and minor refinements, but also exciting new work by Elmar Bucher prepping for a future "PhysiGym" addon for RL etc.
Major thanks to @danielrbergman.bsky.social for numerous PRs! Watch @physicell.bsky.social for the release.
Reposted by Vincent Noël
At the #Hanami High Level Symposium, my friend and colleagues Adam Smelko is presenting our new @PhysiCell formulation that allows for stretchable cellular membrane! We are still working on this, but I hope we will be able to give you updates vero soon!
January 14, 2025 at 11:02 AM
At the #Hanami High Level Symposium, my friend and colleagues Adam Smelko is presenting our new @PhysiCell formulation that allows for stretchable cellular membrane! We are still working on this, but I hope we will be able to give you updates vero soon!
Reposted by Vincent Noël
A fun FYI: PhysiCell was first publicly presented in 2015, with first open source release in 2016.
So let's call 2025 our 10th anniversary! 🧪
So let's call 2025 our 10th anniversary! 🧪
January 15, 2025 at 4:58 PM
A fun FYI: PhysiCell was first publicly presented in 2015, with first open source release in 2016.
So let's call 2025 our 10th anniversary! 🧪
So let's call 2025 our 10th anniversary! 🧪
Thanks a lot for the kind words Ashlee! Very happy that our tutorial is useful. And of course, we are always available to answer questions and happy to clarify any points!
I'm so thankful for this post! I saw it just as two different collaborators were asking us to do things with our ABMs that we hadn't done before. Your tutorials and demos were so clear! Coupling with MaBoSS and PhysiCell Studio is also great and intuitive!
November 25, 2024 at 11:42 PM
Thanks a lot for the kind words Ashlee! Very happy that our tutorial is useful. And of course, we are always available to answer questions and happy to clarify any points!
Reposted by Vincent Noël
Some word clouds based on publications by @vincent-noel.fr. Popular topics: cell, models, signaling.
November 17, 2024 at 11:06 PM
Some word clouds based on publications by @vincent-noel.fr. Popular topics: cell, models, signaling.
Our #PhysiBoSS tutorial is now available at Briefings in Bioinformatics: academic.oup.com/bib/article/.... Learn how to build #multiscale models with #Boolean intracellular signaling, without any code, using #PhysiCell Studio! Showing three simple examples, and an update of Ruscone's invasion model👇
November 8, 2024 at 7:05 PM
Our #PhysiBoSS tutorial is now available at Briefings in Bioinformatics: academic.oup.com/bib/article/.... Learn how to build #multiscale models with #Boolean intracellular signaling, without any code, using #PhysiCell Studio! Showing three simple examples, and an update of Ruscone's invasion model👇
Reposted by Vincent Noël
Congratulations to Cicely Macnamara, Robyn Shuttleworth, @vincent-noel.bsky.social, and Marco Ruscone for publishing PhysiMeSS in @gigabytejournal.bsky.social!
A beautiful community contribution to the @physicell.bsky.social ecosystem! Tremendous work!! 🧪
gigabytejournal.com/articles/136
A beautiful community contribution to the @physicell.bsky.social ecosystem! Tremendous work!! 🧪
gigabytejournal.com/articles/136
PhysiMeSS - a new physiCell addon for extracellular matrix modelling
PhysiMeSS - a new physiCell addon for extracellular matrix modelling
gigabytejournal.com
October 16, 2024 at 7:55 PM
Congratulations to Cicely Macnamara, Robyn Shuttleworth, @vincent-noel.bsky.social, and Marco Ruscone for publishing PhysiMeSS in @gigabytejournal.bsky.social!
A beautiful community contribution to the @physicell.bsky.social ecosystem! Tremendous work!! 🧪
gigabytejournal.com/articles/136
A beautiful community contribution to the @physicell.bsky.social ecosystem! Tremendous work!! 🧪
gigabytejournal.com/articles/136
Reposted by Vincent Noël
PhysiCell 1.14.0 is released!
Key features include improved cell behavior grammar (including better phagocytosis, effector attack, and cell damage), better initialization, and more! 🧪
Release notes and downloads:
github.com/MathCancer/P...
Key features include improved cell behavior grammar (including better phagocytosis, effector attack, and cell damage), better initialization, and more! 🧪
Release notes and downloads:
github.com/MathCancer/P...
Release Version 1.14.0 · MathCancer/PhysiCell
PhysiCell: an Open Source Physics-Based Cell Simulator for 3-D Multicellular Systems
Versions: 1.14.0 -
Release dates: 15 September 2024 -
1.14.0 : 15 September 2024
Overview:
PhysiCell is a flex...
github.com
September 16, 2024 at 2:43 PM
PhysiCell 1.14.0 is released!
Key features include improved cell behavior grammar (including better phagocytosis, effector attack, and cell damage), better initialization, and more! 🧪
Release notes and downloads:
github.com/MathCancer/P...
Key features include improved cell behavior grammar (including better phagocytosis, effector attack, and cell damage), better initialization, and more! 🧪
Release notes and downloads:
github.com/MathCancer/P...
Reposted by Vincent Noël
Our #PhysiBoSS tutorial is finally available as a preprint: arxiv.org/abs/2406.18371! Learn how to build #multiscale models with #Boolean intracellular signaling, without any code, using #PhysiCell Studio. Showing 3 simple examples, and an update of @MRuscone
invasion model 👇
invasion model 👇
July 4, 2024 at 11:25 AM
Our #PhysiBoSS tutorial is finally available as a preprint: arxiv.org/abs/2406.18371! Learn how to build #multiscale models with #Boolean intracellular signaling, without any code, using #PhysiCell Studio. Showing 3 simple examples, and an update of @MRuscone
invasion model 👇
invasion model 👇
Reposted by Vincent Noël
Read our essay in Nat Cell Bio:
"Bringing computation to biology by bridging the last mile"
We argue to shift resources/rewards towards creating user-friendly software to bridge computation and biology - it yields huge returns!
@shantanuxsingh.bsky.social
Free author link: rdcu.be/dv82F
"Bringing computation to biology by bridging the last mile"
We argue to shift resources/rewards towards creating user-friendly software to bridge computation and biology - it yields huge returns!
@shantanuxsingh.bsky.social
Free author link: rdcu.be/dv82F
January 16, 2024 at 5:53 PM
Read our essay in Nat Cell Bio:
"Bringing computation to biology by bridging the last mile"
We argue to shift resources/rewards towards creating user-friendly software to bridge computation and biology - it yields huge returns!
@shantanuxsingh.bsky.social
Free author link: rdcu.be/dv82F
"Bringing computation to biology by bridging the last mile"
We argue to shift resources/rewards towards creating user-friendly software to bridge computation and biology - it yields huge returns!
@shantanuxsingh.bsky.social
Free author link: rdcu.be/dv82F
Reposted by Vincent Noël
Open #PhD position in the team! Modelling organoid digital twins to study muscle genetic diseases. With @eremy3 and in @centuri_ls interdisciplinary framework!
centuri-livingsystems.org/phd2024-15/
centuri-livingsystems.org/phd2024-15/
January 22, 2024 at 7:10 AM
Open #PhD position in the team! Modelling organoid digital twins to study muscle genetic diseases. With @eremy3 and in @centuri_ls interdisciplinary framework!
centuri-livingsystems.org/phd2024-15/
centuri-livingsystems.org/phd2024-15/
Final days for applying to the #systembiology course organised by @hallben.bsky.social and Anna Niarakis ! I'll be teaching #MaBoSS stuff there. Don't miss it !
Applications are now open for our advanced course in #systemsbiology! We will cover developing logical and executable models for understanding human disease.
keynotes by Henning Hermjakob, Julio Saez Rodriguez, and Jasmin Fisher!
coursesandconferences.wellcomeconnectingscience.org/event/comput...
keynotes by Henning Hermjakob, Julio Saez Rodriguez, and Jasmin Fisher!
coursesandconferences.wellcomeconnectingscience.org/event/comput...
January 6, 2024 at 11:00 AM
Final days for applying to the #systembiology course organised by @hallben.bsky.social and Anna Niarakis ! I'll be teaching #MaBoSS stuff there. Don't miss it !