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Argyris Zardilis

@zardilis.bsky.social
260 followers 402 following 6 posts

Scientist @slcuplants.bsky.social I like to wonder (το θαυμάζειν) about the world www.slcu.cam.ac.uk/people/argyris-z…

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Reposted by Argyris Zardilis
Cambridge Morphogenesis Seminar Series @cammorphoseries.bsky.social · 02/10/2026
🚨The Cambridge Morphogenesis Seminar Series is back! We are excited to introduce our fantastic lineup of speakers for this term, covering a wide range of topics in morphogenesis. 👇👇Check out the full programme below👇👇 We look forward to seeing you soon!
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Development @dev-journal.bsky.social · 30/09/2026
Pathway to Independence – an interview with Josep Mercadal In this interview, @josepmercadal.bsky.social talks about the importance of interdisciplinary diversity for developmental biology, as well as his hopes and plans for his future lab. doi.org/10.1242/dev....
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Sainsbury Laboratory Cambridge University (SLCU) @slcuplants.bsky.social · 29/09/2026
A huge thank you to everyone who attended #SLS26 & our concluding keynote speaker @apmahonen.bsky.social for a fascinating talk and exciting new insights into how stem cell fate decisions are regulated in the vascular cambium. Read more about his team's work: www.helsinki.fi/en/researchg...
Group photo of attendees at #SLS26Ari Pekka Mähönen presenting at #SLS26
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Sainsbury Laboratory Cambridge University (SLCU) @slcuplants.bsky.social · 23/09/2026
And that's a wrap for our Flash Talk speakers and poster presenters for Day 2. A huge diversity of really interesting research showcasing the importance of combining molecular genetics, biochemistry, genomics, live imaging & computational modelling
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Argyris Zardilis @zardilis.bsky.social · 23/09/2026
So nice to talk at #SLS26 about learning gene regulation dynamics from spatial data, learning interpretable mechanistic models from the flower atlas at the scale of the whole dataset!
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James Briscoe @jamesbriscoe.bsky.social · 01/09/2026
Our latest: Dynamic Landscape Analysis of cell fate decisions provides predictive models of neural development from single-cell data From Marine Fontaine and @joadelas.bsky.social with David Rand in @plosbiology.org A thread 🧵 doi.org/10.1371/jour...
doi.org
Dynamic Landscape Analysis of cell fate decisions provides predictive models of neural development from single-cell data
Applying dynamical systems theory to single-cell data can provide a detailed picture of the cellular states observed during cell fate decisions. This study presents a dynamic landscape analysis (DLA) ...
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Reposted by Argyris Zardilis
The Francis Crick Institute @crick.ac.uk · 24/08/2026
Join us for our first online AI for Biological Discovery Seminar, where our Chief AI Scientist Mihaela van der Schaar will host Caroline Uhler to discuss her research at the intersection of machine learning, statistics and genomics. Learn more and book your free ticket: bit.ly/4xAvNLL
bit.ly
AI in Biology Seminar | Professor Caroline Uhler
A new AI for Biological Discovery Seminar Series, presented by the Francis Crick Institute.
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Reposted by Argyris Zardilis
Philip Ball @philipcball.bsky.social · 10/08/2026
"The central challenge is no longer building models that reproduce biological behavior, but building models from which causal structure can be inferred." Very sensible paper about not just throwing everything into your simulation or model. arxiv.org/abs/2608.06998
arxiv.org
Simulating is not always understanding: When model complexity obscures biology
In cell biology, computational models of biological systems range from minimal representations with a handful of parameters to whole-cell simulations tracking thousands of molecular species across a c...
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Umeå Plant Science Centre @umeaplantsciencecentre.se · 24/06/2026
🧪🌾VACANCY - How do cell-wall properties shape plant growth?🔬 Join Laura Bacete's group @cellwalldynamics.com as a postdoc and combine plant cell wall biology, biophysics and spatial transcriptomics. Apply by Aug 31👇 www.umu.se/en/work-with...
umu.se
Postdoctoral scholarship (2 years) in Plant Cell Wall Biology, Biophysics, and Spatial Transcriptomics
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Sebastián Moreno-Ramírez @sebamorenor.bsky.social · 22/06/2026
Excited to share that our work on single-nucleus RNA-seq of the shoot apical meristem — the shoot stem cell niche — has found a home. #Plantascience #scRNAseq #stemcells www.science.org/doi/10.1126/...
science.org
Single-nucleus transcriptomics resolves multiple fate dynamics between inflorescence meristem and primary stem
snRNA-seq reveals shoot stem cell heterogeneity and traces their differentiation into primary stem cell types.
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Cambridge Morphogenesis Seminar Series @cammorphoseries.bsky.social · 08/06/2026
We had an amazing day #Morpho5🖐️ last Friday! Thank you to everyone who joined us for a fantastic day of science, discussion, and community!!| We're currently gathering and preparing the photos from the symposium. Stay tuned! 📸
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Reposted by Argyris Zardilis
The Francis Crick Institute @crick.ac.uk · 03/06/2026
In a collaboration between the Crick and @embl.org, researchers used a mix of experimental work in zebrafish and theoretical modelling to discover a feedback loop between an embryo’s changing material properties, such as its rigidity, and the signalling molecules that guide patterning.
crick.ac.uk
The physical properties behind an embryo’s body plan
How rigid a tissue is coordinates a crucial period of cell patterning, ensuring that embryos develop the right shape and organise their cell layers correctly at the same time.
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Sainsbury Laboratory Cambridge University (SLCU) @slcuplants.bsky.social · 01/06/2026
#PlantSciJobs 🌱 Postdoctoral Research Associate (x2) and Research Assistant (x2) Dr Edwige Moyroud is seeking 2 Postdocs and 2 Research Assistants to join her team investigating petal patterning Applications close: 5 June: Research Assistant bit.ly/4a32ffK 17 June: Postdoc bit.ly/4dT2LOC
Microscopy images of a petal showing petal patterning developing in the young petals. Around the image is 6-stages of hibiscus development from closed bud to open flower. The flower is plit in two to show one flower with a dark purple bullseye and one flower fully white with no pigment petal patterns.
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Anna Foix @afoix.bsky.social · 26/05/2026
🔬 One more year! BioImage Computing has been accepted to @eccv.bsky.social 🎉 Show us your work at the intersection of computer vision, ML & biology! Check out our speaker lineup: @arratemunoz.bsky.social, @jakobtroidl.bsky.social & Juliette Griffié 👏 ⏳ Deadline: 13 July ℹ️ www.bioimagecomputing.com
bioimagecomputing.com
BioImage Computing
a truly interdisciplinary workshop
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Sarah Robinson @robinsonsci.bsky.social · 28/05/2026
www.cam.ac.uk/jobs/researc...
cam.ac.uk
Research Assistant - Robinson Group
Applications are invited for a Research Assistant position in the group of Dr Sarah Robinson at the Sainsbury Laboratory Cambridge University. The successful applicant will be part of a group that inv...
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Reposted by Argyris Zardilis
Turlier lab @turlierlab.bsky.social · 12/04/2026
How can we learn tissue mechanics directly from cell patterns and images? In our new preprint, we introduce VertAX, a differentiable vertex-model framework in JAX for simulating epithelia, inferring parameters, and designing target tissue behaviors. shorturl.at/PUzT0 1/5
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Wolfram Pönisch @wolframponisch.bsky.social · 16/04/2026
Interested in stochastic tissue morphodynamics in development and disease? Join us at HT @humantechnopole.bsky.social We are recruiting a postdoc for a project combining image analysis, morphometrics, and modelling in collaboration with experimentalists. More information: tinyurl.com/3kc7s4rz
careers.humantechnopole.it
Postdoc Pönisch Lab
Postdoc Pönisch Lab
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Gabriella Mosca @moscabiomeclab.bsky.social · 18/03/2026
New #Sci #Job ! Together with six other PI’s based at the Universities of Tübingen - Heidelberg - Hohenheim and the Max Planck Institute for Biology in Tübingen, we are looking for two PhD students and a Postdoc for our LEAP project, which is part of the Cluster of Excellence @greenrobust.de
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Reposted by Argyris Zardilis
James Briscoe @jamesbriscoe.bsky.social · 09/03/2026
New Perspective form Rory Maizels & me: "Gene regulatory networks: from correlative models to causal explanations" Gene regulatory networks are supposed to give us mechanistic explanations of development, so why are we drowning in 'hairballs' of statistical correlations? rdcu.be/e7zx7
rdcu.be
Gene regulatory networks: from correlative models to causal explanations
Nature Reviews Genetics - In this Perspective, Maizels and Briscoe discuss the limitations of current models of gene regulatory networks and outline solutions to harness data abundance without...
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Cambridge Morphogenesis Seminar Series @cammorphoseries.bsky.social · 09/03/2026
📢We are excited to announce the Cambridge Morphogenesis Symposium - a full day event at SLCU @slcuplants.bsky.social (and virtually) on 5 June 2026! 🎉Come celebrate the 5th anniversary of the seminar series! 🚩Register & submit abstracts by 3 April! Check out the details: t.ly/YYM3u Please repost!🙏
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Sainsbury Laboratory Cambridge University (SLCU) @slcuplants.bsky.social · 16/02/2026
Registrations now open for #SLS26 Sainsbury Laboratory Symposium 2026 in Cambridge, UK — Shaping Life: Mechanisms of Morphogenesis! Join us explore how cellular, genetic & mechanical forces sculpt plant form 📅 22–24 Sept 2026 In-person + livestream Limited fee waivers www.slcu.cam.ac.uk/sls #plantsi
Sainsbury Laboratory Symposium 2026 logo - Shaping Life-Mechanisms of Morphogenesis. Timelapse of a developing Arabidopsis leaf imaged at 9-12 days old under a confocal microscope, with cells segmented and coloured using MorphographX software. Images by Sarah Attrill.
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Laura Cantini @cantinilab.bsky.social · 30/01/2026
PhD position in my team at @pasteur.fr ! The selected canddiate will work on the development of new methods combining biophysicial and machine learning modelling for single-cell multi-omics spatiotemporal data. emploi.cnrs.fr/Offres/Docto...
emploi.cnrs.fr
Portail Emploi CNRS - Offre d'emploi - PhD (M/F) in development of machine learning methods for single-cell omics data integration
Assurez-vous que votre profil candidat soit correctement renseigné avant de postuler
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Cambridge Morphogenesis Seminar Series @cammorphoseries.bsky.social · 16/01/2026
The Cambridge Morphogenesis Seminar Series is back! 🎉 Check out the flyer for a great lineup of speakers for Lent Term 2026! Don't forget to subscribe to our mailing list to get all the information, including the Zoom link. We are excited to see you again soon 👋
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Paul Villoutreix @paulvilloutreix.bsky.social · 07/01/2026
We have an open PhD position here in Marseille - please spread the word :) Deadline for application is 28th of January!
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EMBL-EBI @ebi.embl.org · 18/12/2025
The new ShapeEmbed deep learning method helps quantify shapes in bioimages 🔬 It learns to encode 2D object outlines into descriptors that are invariant to several geometric transformations. Great for robust cell shape analysis, classification & exploring phenotypes. neurips.cc/virtual/2025...
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James Briscoe @jamesbriscoe.bsky.social · 16/12/2025
Good to see the peer reviewed version of this published A chemo-optogenetic system for spatiotemporal control of gene expression We use it to: - Reconstruct SHH mediated neural tube patterning in vitro - Measure extracellular half-life of Shh www.cell.com/developmenta...
cell.com
Investigating morphogen and patterning dynamics with optogenetic control of morphogen production
Benzinger et al. develop a chemo-optogenetic system for precise spatiotemporal control of morphogen production in vitro. Using light-controlled Sonic hedgehog expression, they recapitulate neural tube...
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Reposted by Argyris Zardilis
Osvaldo Chara @osvaldo-chara.bsky.social · 17/12/2025
Interested in doing an interdisciplinary PhD to elucidate signalling centres that orchestrates limb regeneration? Come to work with the amazing @canaztekin.bsky.social and myself!!
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Sainsbury Laboratory Cambridge University (SLCU) @slcuplants.bsky.social · 28/11/2025
Congratulations Elise Laruelle & @robinsonsci.bsky.social on your @acceleratescience.bsky.social - @c2d3.cam.ac.uk funded project "Plant automatic cell lineage reconstruction" More info www.slcu.cam.ac.uk/news/plant-a... Illustration by Elise Laruelle & leaf images by @sainikumud.bsky.social
Graphic depicting the Plant Automatic Cell Lineage Reconstruction project which aims to train a neural network to recognise “sister cells” in mature plant leaves and reconstruct their complete cell division history from a single image.. Illustration by Elise Laruelle and leaf images by Kumud Saini.
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Machine Learning in Science @mackelab.bsky.social · 13/11/2025
Our work on training biophysical models with Jaxley is now out in @natmethods.nature.com. Led by @deismic.bsky.social, with @philipp.hertie.ai, @ppjgoncalves.bsky.social & @jakhmack.bsky.social et al. Paper: www.nature.com/articles/s41...
nature.com
Jaxley: differentiable simulation enables large-scale training of detailed biophysical models of neural dynamics - Nature Methods
Jaxley is a versatile platform for biophysical modeling in neuroscience. It allows efficiently simulating large-scale biophysical models on CPUs, GPUs and TPUs. Model parameters can be optimized with ...
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Sebastian Schornack @dromius.bsky.social · 06/11/2025
Plz RP. Come join us at @slcuplants.bsky.social @cam.ac.uk to study effector-targeted plant processes impacting plant cell biology and development. www.cam.ac.uk/jobs/post-do... www.schornacklab.net
advert text as bitmappicture of the Schornacklab team
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David Brückner @davidbrueckner.bsky.social · 10/11/2025
How can we organize current theoretical approaches for developmental biology - from information to dynamical systems & GRNs - into a common framework? We propose to think along Marr's 3 levels: computational problem, algorithm, implementation Check out our review: arxiv.org/abs/2510.24536
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Cambridge Morphogenesis Seminar Series @cammorphoseries.bsky.social · 03/10/2025
The Cambridge Morphogenesis Seminar Series is back this Michaelmas Term 2025! Join us for an exciting lineup of talks exploring the many facets of tissue morphogenesis. Check out the flyer for the full list of speakers!
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Crick BioImage Analysis Symposium @cbias.bsky.social · 23/09/2025
The program for the #CBIAS2025 is now live – space is limited, so register now to secure your spot! 24th-25th Nov, Wellcome Trust, London (UK) - see you there! 🔗⬇️ www.crick.ac.uk/whats-on/cri...
CBIAS2025 flier, showing the conference logo, listing the topics, confirmed speakers and sponsors. On the top right corner, a QR code is available to access the registration page.
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Amir Porat @amirporat.bsky.social · 29/08/2025
New preprint! "Understanding Shape and Residual Stress Dynamics in Rod-Like Plant Organs" 🌱 with @merozlab.bsky.social and @routierlab.bsky.social 👉 doi.org/10.1101/2025...
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Gabriella Mosca @moscabiomeclab.bsky.social · 07/09/2025
The BM^2 Lab is hiring a Ph.D. student to work on a variety of problems connected to modeling of morphogenesis in plants (i.e. ovule curvature formation, fixed handedness establishment in certain plant organs and its link to cell wall mechanics). Please share!
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Sainsbury Laboratory Cambridge University (SLCU) @slcuplants.bsky.social · 17/09/2025
🌿💻 Plant Models and Morphology 💻🌿 The 9th International Plant Computational Biology Workshop @slcuplants.bsky.social brought together mathematicians, computer scientists, physicists and biologists exploring plant development through models and simulations. Huge thanks to organisers and speakers!👏
Group photo of workshop attendees standing in ginkgo tree courtyard with the Sainsbury Laboratory Cambridge University building in background.
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Paul Villoutreix @paulvilloutreix.bsky.social · 16/09/2025
Very happy to share MODIS - a new Multi-Omics Data Integration method for Small and unpaired datasets! We solve a long-standing problem in the field: how to perform data integration for small unpaired datasets Our solution: learning with class imbalance on both reference and target datasets!
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Argyris Zardilis @zardilis.bsky.social · 16/09/2025
Amazing illustration @nickdesnoyer.bsky.social 🌺! I wish we had something like this to illustrate the dynamics of our model! Paper (including model, not animated sadly!) ➡️ doi.org/10.1126/scia...
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Argyris Zardilis @zardilis.bsky.social · 23/07/2025
Come and work with us! We are hiring a research assistant/associate @slcuplants.bsky.social to work on the RESYDE project (www2.hu-berlin.de/resyde/) using ML for multi-scale data and modelling to understand and engineer flower development! Details: www.jobs.cam.ac.uk/job/52116/
www2.hu-berlin.de
Home -
RESYDE: Re-engineering symmetry breaking in development and evolution. A consortia of plant scientists from Europe and Australia has been awarded a prestigious research grant from the ERC, which will ...
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Argyris Zardilis @zardilis.bsky.social · 02/05/2025
It was very nice to attend and present at #LMRL @iclr-conf.bsky.social ! Our paper with my student Sasha Budnikova @slcuplants.bsky.social on learning mechanical models (Lockhart) from data! openreview.net/forum?id=yQF...
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Argyris Zardilis @zardilis.bsky.social · 10/04/2025
Looking forward to this! Join us!
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Reposted by Argyris Zardilis
Hallou Lab @halloulab.bsky.social · 17/03/2025
🚨 Paper Alert 🚨 Absolutely delighted to share our last paper on "spatial mechano-transcriptomics" @naturemethods👇!! www.nature.com/articles/s41...
nature.com
A computational pipeline for spatial mechano-transcriptomics - Nature Methods
The authors present a computational framework that leverages mechanical force inference and spatial transcriptomics to enable analyses of the interplay between the transcriptomic and mechanical state.
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Paul Villoutreix @paulvilloutreix.bsky.social · 25/11/2024
We were delighted to host @zardilis.bsky.social from Cambridge's Sainsbury Laboratory during the past two weeks! It was a fantastic opportunity to exchange ideas on the spatial biology of plants and beyond. Interesting new methods combining expression patterns, morphometric and physical features!!
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