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Nicole Repina

@nrepina.bsky.social
345 followers 231 following 18 posts

Studying multiscale emergence (cell -> tissue) at FMI Basel complex systems | 3D shape | morphogenesis | self-organization | philosophy of biology | systems evo-devo | image analysis | illustration ✨ always questioning, forever inspired ✨

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Reposted by Nicole Repina
Xavier Trepat @xaviertrepat.bsky.social · 06/08/2026
When tension increases, the nucleus escapes. New paper out in @natphys.nature.com. Check out Tom's thread for a summary 👇
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jared toettcher @toettch.bsky.social · 24/07/2026
New Toettchlab paper alert! Harrison Oatman just published his beautiful work combining software design for "smart" microscopy+optogenetics and some really beautiful work understanding EGFR-driven collective cell migration. www.cell.com/cell-systems...
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Quanta Magazine @quantamagazine.org · 19/07/2026
Introduced by Bernhard Riemann in the mid-19th century, manifolds are crucial to our understanding of the universe.
quantamagazine.org
What Is a Manifold? | Quanta Magazine
In the mid-19th century, Bernhard Riemann conceived of a new way to think about mathematical spaces, providing the foundation for modern geometry and physics.
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Itai Yanai @itaiyanai.bsky.social · 24/06/2026
🔥 Published today, and just in time for summer conferences, here are your guidelines for presenting badly www.nature.com/articles/s41... rdcu.be/fqa92
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Nicoletta Petridou @nicolettapetridou.bsky.social · 02/06/2026
Here the published version of our work on uncoupling different types of tissue phase transitions during development! Find out more on how contact surface tension-driven rigidity transitions trigger tricellular junction formation and initiate epithelial organization! @natphys.nature.com
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Zoe Nahas @zoenahas.bsky.social · 12/06/2026
Tune in this coming Monday on zoom! I'll be presenting work from my PhD @slcuplants.bsky.social on how plants regulate their shoot branching architecture via auxin, strigolactone, and BRC1.
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Gautam Dey @gautamdey.bsky.social · 18/05/2026
Multinucleate cells challenge deeply-held assumptions about complexity, ecological success and evolution. Postdoc extraordinaire and gifted writer @mrosjac.bsky.social tackles this subject with aplomb - tell us what you think! www.sciencedirect.com/science/arti... @currentbiology.bsky.social
sciencedirect.com
Multinucleation as a recurring evolutionary strategy for scaling and plasticity
Multinucleate cells — single cells containing multiple nuclei in a shared cytoplasm — are found across the eukaryotic tree of life. Having evolved ind…
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Nature @nature.com · 22/05/2026
Nature research paper: A deep-learning framework reveals whole-body perturbations at cell level go.nature.com/3Pjox61
go.nature.com
A deep-learning framework reveals whole-body perturbations at cell level - Nature
An analysis of diet-induced obesity using MouseMapper—a suite of foundation-model-based deep-learning algorithms—identifies structural alterations of the infraorbital branch of the trigeminal ganglia.
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James Briscoe @jamesbriscoe.bsky.social · 08/06/2026
Our latest: Minimal essential requirements for neural tube self-organisation How does a single cell give rise to a tissue with the right cell types in the right proportions? We deconstruct and rebuild a self-organising tissue from first principles A thread🧵 www.biorxiv.org/content/10.6...
biorxiv.org
Minimal essential requirements for neural tube self-organisation
The reliable generation of diverse cell types in precise proportions is essential for the formation of functional tissues during embryonic development. Three-dimensional organoid models derived from p...
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Virginie Uhlmann @virginieuhlmann.bsky.social · 01/06/2026
📢📢 We are hiring a Bioimage Analyst at the BioVisionCenter! 📢📢 Join our collaboration with the Flow Cytometry Facility and contribute back to the international efforts on open standards for bioimaging data! More information here, reach out if you have any question: jobs.uzh.ch/job-vacancie...
jobs.uzh.ch
UZH: Bioimage Analyst
The University of Zurich is the largest university in Switzerland and one of the most prominent in Europe. For research purposes the Biovision Center and Flow Cytometry Facility offer services to supp...
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Development @dev-journal.bsky.social · 01/06/2026
Check out our 2026 subject collection, showcasing recent papers in @dev-journal.bsky.social on evolutionary developmental biology: journals.biologists.com/dev/collecti... It has been curated to support the 2026 Euro-Evo-Devo conference in Glasgow, UK. #EED2026
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Xavier Trepat @xaviertrepat.bsky.social · 17/04/2026
Our latest work on shape-programmable tissues is out in @science.org. By positioning topological defects in cellular nematics, we encode frustrated 2D force fields that relax into predictable 3D shapes. Collaboration with Marino Arroyo’s lab, led by @pauguillamat.bsky.social at @ibecbarcelona.eu.
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Stella Hurtley @smhsci.bsky.social · 10/04/2026
Check out 2 papers and a related Perspective on tissue regeneration in @science.org this week Species-specific oxygen sensing governs the initiation of vertebrate limb regeneration | Science www.science.org/doi/10.1126/...
science.org
Species-specific oxygen sensing governs the initiation of vertebrate limb regeneration
Why mammals cannot regenerate limbs like amphibians do presents a long-standing puzzle in biology. To uncover the underlying differences, we compared amputation responses of embryonic mouse (Mus musculus) and Xenopus laevis tadpole limbs. Lowering ...
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Nicole Repina @nrepina.bsky.social · 08/04/2026
I know this tension all too well! Thank you for the highlight
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The Jer Witch Project @neveronbrand.bsky.social · 07/04/2026
How it feels doing literally any task right now.
Viral photo from some years back of a man nonchalantly mowing his yard with a tornado on the horizon .
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James Briscoe @jamesbriscoe.bsky.social · 01/04/2026
A question I get asked all the time by @dev-journal.bsky.social authors "Why does it cost so much to publish a paper?" We break down the finances and explain where the money goes Spoiler: quality publishing takes a village (people + infrastructure) journals.biologists.com/dev/article/...
journals.biologists.com
‘Why is publishing so expensive?’
For many of us who work in scientific publishing, the title of this Editorial is a question we hear all the time when we're out talking to academics. And it's a perfectly reasonable one. After all, re...
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Cambridge Morphogenesis Seminar Series @cammorphoseries.bsky.social · 31/03/2026
3 DAYS LEFT to submit your abstract!! Don’t miss your chance to present at the Cambridge Morphogenesis Symposium. 👉 Submit & register here: t.ly/YYM3u #Morpho5
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Joel Lüthi @joelluethi.bsky.social · 10/03/2026
We’re excited to share our latest preprint on Fractal: our approach towards FAIR bioimage analysis at scale with OME-Zarr-native workflows. Fractal defines interoperable tasks on OME-Zarr and provides a platform for TB-scale image analysis. (1 / 10🧵) www.biorxiv.org/content/10.6...
biorxiv.org
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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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Itai Yanai @itaiyanai.bsky.social · 18/01/2026
Peer Bork died yesterday 💔 which shocked me. In 2003 I did a short-term fellowship in Peer’s lab because I idolized him. I met Martin there & we wrote this paper together. Peer was great at bringing people together; a master collaborator with a rare ability to think up big ideas.
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Marlies Oomen @marliesoomen.bsky.social · 30/09/2025
In need of a positive outlook on the future (of developmental biology)? Read our perspectives by my fellow @dev-journal.bsky.social PI fellows and myself. I'm hoping my future will contain much more TE biology and mammalian genome regulation! journals.biologists.com/dev/article/...
journals.biologists.com
Pathway to Independence: a forecast for the future of developmental biology
ABSTRACT. In 2022, Development launched its Pathway to Independence (PI) programme, aimed at supporting postdocs as they transition to their first independent position. In 2025, we welcome our third c...
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Sara Wickstrom @sarawickstrom.bsky.social · 29/09/2025
How do #stemcells integrate information to coordinate fate decisions? Delighted to finally see our work showing how growth factors regulate the mechano-osmotic state of the #nucleus and #chromatin to control #pluripotency exit out! www.nature.com/articles/s41... see 🧵 👇
nature.com
Mechano-osmotic signals control chromatin state and fate transitions in pluripotent stem cells - Nature Cell Biology
McCreery, Stubb et al. show that mechano-osmotic changes in the nucleus induce general transcriptional repression and prime chromatin for cell fate transitions by relieving repression of specific differentiation genes.
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Itai Yanai @itaiyanai.bsky.social · 24/09/2025
The reality in science is that creativity is not treated as a core skill while hypothesis testing is, and that is the imbalance that we want correct through the Night Science Institute! www.technologynetworks.com/genomics/art... www.night-science.org
technologynetworks.com
The Night Science Institute Is Changing How Science Teaches Creativity
In this interview with Professors Itai Yanai and Martin Lercher, explore how night science brings creativity, ideation and collaboration back into the heart of modern science.
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Nicole Repina @nrepina.bsky.social · 20/09/2025
Great commentary, we all need to understand this
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Reposted by Nicole Repina
Development @dev-journal.bsky.social · 16/09/2025
Hydra body axis balance: a fight between two transcription factors This Research Highlight showcases the work from Jaroslav Ferenc, Marylène Bonvin, Panagiotis Papasaikas, Jacqueline Ferralli, Clara Nuninger and Charisios D. Tsiairis: journals.biologists.com/dev/article/...
Phenotype rescue upon Zic4 and Gata3 double knockdown. (A,B) Maximum projection confocal images of oral (A) and aboral (B) ends of animals after GFP RNAi (control), Zic4 or Gata3 RNAi, and Zic4+Gata3 RNAi. DNA in cyan, peroxidase activity in magenta and Nematocilin in orange. Panels on the right show magnifications of boxed areas on the left. Scale bars: 100μm. Note the ectopic peroxidase staining in tentacle tips upon Zic4 RNAi, and ectopic Nematocilin staining adjacent to the foot upon Gata3 RNAi, as well as rescue of both phenotypes in the double knockdown. (C) Percentage of animals with ectopic peroxidase staining in tentacles upon Zic4 KD and double KD. (D) Percentage of animals with ectopic Nematocilin staining adjacent to the foot in Gata3 KD and double KD. For examples of strong and partial phenotypes refer to Fig. S6. Data in G and H shown for n animals pooled from at least two independent replicates. ***P<0.001 (Fisher's exact test). (E,F) Schematic of proposed model for controlling the choice between basal disk and battery cell fate in Hydra. At the oral pole, Wnt signaling (black dot) activates Zic4 (orange) expression and thus basal disk identity. Without it, Gata3 dominates at the opposite end, leading to basal disk fate establishment (E). Experimentally depleting one of the factors results in ectopic cell fate acquisition at the opposite body end (F).
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Daniel Krüger @danielkrueger.bsky.social · 06/09/2025
Out in @science.org! We found that the intestine doesn’t just push out cells when crowded. Instead, cells are in a mechanical tug-of-war, and weaker ones are extruded. A new view of how our gut keeps its balance and stays healthy. www.science.org/doi/10.1126/...
science.org
Epithelial tension controls intestinal cell extrusion
Cell extrusion is essential for homeostatic self-renewal of the intestinal epithelium. Extrusion is thought to be triggered by crowding-induced compression of cells at the intestinal villus tip. In th...
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Venice Summer School in Evolutionary Systems Biology @veniceevodevo.bsky.social · 08/09/2025
What a week! A huge thank you to all the students and teachers for the for the engaged discussions, thoughtful questions, and good vibes. Rock on, and stay curious! 🤓 ✨ #VeniceEvoDevo #levels #morphogenesis #sysbio #evodevo
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paveltomancak.bsky.social @paveltomancak.bsky.social · 04/09/2025
We are all super happy and proud to see our work on the function and evolution of the #cephalic #furrow published in @nature.com. Let me say a few things about the background and history of this work on the #Evolution_of_Morphogenesis (1/12)
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Ben Engel @cellarchlab.com · 26/08/2025
BIG NEWS!! We will be hiring a new professor with 25 years of endowed funding at the @biozentrum.unibas.ch @unibas.ch, focused on using biophysics and structural biology to explore climate-related fundamental science topics. Come start an innovative research cluster with us! 🧪🔬🧶🧬🌾🌍
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Joel Lüthi @joelluethi.bsky.social · 25/08/2025
We're happy to announce the 2025 International OME-NGFF workshop 🎉 📅 Dates: - Symposium: Nov 10–11, 2025 - Hackathon: Nov 12–14, 2025 📍 Location: Zurich, Switzerland Full details & registration: www.biovisioncenter.uzh.ch/en/events/Up...  #bioimaging #openscience #OMENGFF #OMEZarr (1/x 🧵)
Visual of segmented human induced pluripotent stem cells with the key workshop dates: Symposium on November 10-11, Hackathon on November 12-14th in Zurich Switzerland
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bioRxiv Developmental Biology @biorxiv-devbio.bsky.social · 06/06/2025
A closed feedback between tissue phase transitions and morphogen gradients drives patterning dynamics www.biorxiv.org/content/10.1101/202…
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James Briscoe @jamesbriscoe.bsky.social · 29/05/2025
Our latest "Dynamic Landscape Analysis of Cell Fate Decisions: Predictive Models of Neural Development From Single-Cell Data" A rigorous mathematical foundation for Waddington's landscape to study cell fate decision making Applied to ventral neural tube development www.biorxiv.org/content/10.1...
biorxiv.org
Dynamic Landscape Analysis of Cell Fate Decisions: Predictive Models of Neural Development From Single-Cell Data
Building a mechanistic understanding of cell fate decisions remains a fundamental goal of developmental biology, with implications for stem cell therapies, regenerative medicine and understanding dise...
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Arthur Michaut 🔬🐣 @amichaut.bsky.social · 12/05/2025
🚨📣 New preprint alert! Excited to share my new postdoc work on direct force and mechanical properties measurements in live embryos! A great team effort with A. Chamolly (theory), under the supervision of F. Corson and @jeromegros.bsky.social 📄 www.biorxiv.org/content/10.1... #devbio #mechanics
biorxiv.org
Direct measurements of active forces and material properties unveil the active mechanics of early embryogenesis
Despite progress in probing tissue mechanics, direct long-term measurements in live embryonic epithelia are lacking. This limits our understanding of amniote embryonic morphogenesis, which takes place...
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Nicole Repina @nrepina.bsky.social · 06/06/2025
This is so reasonably wonderful!!!!! 🤩
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Prakash Lab at Stanford @prakashlab.bsky.social · 24/11/2024
My favorite NPR story blog - “Goats and Soda” sent a writer and photographer to a rural school in India; an early adopter of Foldscope. A wonderful photo story of kids “reading nature”. In this current challenging climate - the kids show us the way with joy and wonder. www.npr.org/sections/goa...
Mo Pandiarajan, founder of Eden school, shows students a view of a specimen in a Foldscope, which he's attached to his mobile phone.
Photo credit: Viraj Nayer for NPRA.Santhos inserts a slide into the foldscope. He is a former student who lives in the neigbourhood and keeps in touch with the students of his alma mater, often taking them for nature walks to examine the world around them through the foldscope.
Viraj Nayer for NPRStudents at Eden School select specimens to examine with their Foldscopes.
Viraj Nayer for NPR
Ramana Rajeesh Kumar, 11, Meenakshi, 8, and Magathi Yazhini, 9, with their Foldscopes. Ramana has been fascinated with bugs for a while. "They look even cooler under the Foldscope," he says. "Especially their eyes and hairy feet!"  
Viraj Nayer for NPR
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Nicole Repina @nrepina.bsky.social · 30/03/2025
Last chance to come join us, don’t forget to apply (by tomorrow March 31st)!!!
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Venice Summer School in Evolutionary Systems Biology @veniceevodevo.bsky.social · 30/03/2025
Deadline is TOMORROW night (Mar 31). Not tonight, like wrongly announced at first. And that's good news: because you get another 24hrs to apply, if you have not yet done so! What are you waiting for!? 😉 Registration link below:
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Venice Summer School in Evolutionary Systems Biology @veniceevodevo.bsky.social · 04/03/2025
Our teachers this year: Mihaela Pavličev Mihaela co-chairs the Department of Evolutionary Biology at Uni Vienna. She studies mammalian reproduction to understand how organismal organization affects variation. She will present a model of tissue evolution based on metabolic interdependence.
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Venice Summer School in Evolutionary Systems Biology @veniceevodevo.bsky.social · 25/02/2025
Our teachers this year: Thibaut Brunet (@thibautbrunet.bsky.social) Thibaut studies the evolutionary origin of animal morphogenesis at Institut Pasteur in Paris. He will be teaching us about this and also how multicellularity first arose in evolution.
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Venice Summer School in Evolutionary Systems Biology @veniceevodevo.bsky.social · 03/03/2025
Our teachers this year: Wallace Marshall (@wallaceucsf.bsky.social) Wallace studies how cells solve engineering problems, how geometry arises within cells, and how it shapes and constrains cellular behavior. He'll be telling us how cell shape constrains underlying pathways.
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Venice Summer School in Evolutionary Systems Biology @veniceevodevo.bsky.social · 24/02/2025
Our teachers this year: Dan Brooks (@dsbrooks.bsky.social) Dan's research interests span the history & philosophy of the life sciences, concept usage in science & theory in biology. At our school, he'll have a thing or two to say about levels of organization, what they are & where they come from.
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Philip Ball @philipcball.bsky.social · 20/02/2025
Well well, timely! 😉 www.cell.com/cell-systems...
cell.com
Should biology put complexity first?
The dictum “Everything should be made as simple as possible, but no simpler” poses a problem for biology. How simply can it be told without doing damage to its complex nature? The answer might be foun...
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Nature @nature.com · 12/02/2025
Nature research paper: Topological segregation of stress sensors along the gut crypt–villus axis go.nature.com/4b4jcpC
go.nature.com
Topological segregation of stress sensors along the gut crypt–villus axis - Nature
Serotonergic enterochromaffin cells of the intestine exhibit distinct sensory, secretory and physiological properties depending on their location within the complex crypt–villus architecture of the gut.
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Venice Summer School in Evolutionary Systems Biology @veniceevodevo.bsky.social · 18/02/2025
Our teachers this year: Nicole Repina (@nrepina.bsky.social) Nicole is using quantitative imaging to study how complex tissue shape can emerge from cell interactions. In Venice, she will be speaking about how we can use imaging for multiscale analysis of multicellular systems.
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Venice Summer School in Evolutionary Systems Biology @veniceevodevo.bsky.social · 17/02/2025
Our teachers this year: James DiFrisco James is a philosopher of science and theoretical biologist working @crick.ac.uk on the evolution of gene regulatory networks, modularity and pleiotropy, vertebrate gastrulation, and the developmental basis of morphological homology/tissue organization.
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Heisenberg Lab @heisenbergcplab.bsky.social · 06/02/2025
📢‼️ Exciting new preprint from the lab by @nikhil-mishra.bsky.social et al, now out on @biorxivpreprint.bsky.social, reveals that the early embryo geometry spatiotemporally patterns zygotic genome activation (ZGA) in zebrafish. 🐟 tinyurl.com/Biorxiv-nmis... Read on to learn more... 👇
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Venice Summer School in Evolutionary Systems Biology @veniceevodevo.bsky.social · 14/02/2025
*** Registration deadline approaching! Apply to our Summer School in Evolutionary Systems Biology in Venice before MARCH 31, 2025 Reflect on your science in a beautiful and inspiring environment! Food & accommodation for the whole week are included in the course fee. Registration link below.
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Venice Summer School in Evolutionary Systems Biology @veniceevodevo.bsky.social · 14/02/2025
It's #FollowFriday #FF Follow this year's #VeniceEvoDevo teachers: @bensteventon.bsky.social @dsbrooks.bsky.social @thibautbrunet.bsky.social @wallaceucsf.bsky.social @rashmi-priya.bsky.social and organizers (James is extremely offline): @nrepina.bsky.social @yoginho.spore.social.ap.brid.gy
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Constantin Pape @cppape.bsky.social · 12/02/2025
After a long journey, Segment Anything for Microscopy is now published in Nature Methods! We significantly improve SAM for interactive and automatic segmentation in light and electron microscopy and build a user-friendly tool. www.nature.com/articles/s41...
Improvements in LM (top) and EM (bottom) of our micro-sam model (finetuned) compared to the default SAM model.
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Nicole Repina @nrepina.bsky.social · 13/02/2025
Ski day at our joint @ehannezo.bsky.social @priscaliberali.bsky.social lab retreat! 🤗 #ischgl #austria ❄️☃️ @davidbrueckner.bsky.social
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