Maria

📌 Tracking cell dynamics just got smarter!
We use Bayesian linking algorithms — KOFT and SKT — implemented in our ByoTrack 🐍 Python library.
Kalman filters + optical flow for links & mitosis detection.
[PDF] celltrackingchallenge.net
#CellTracking #Python #KalmanFilter #OpticalFlow #OpenScience

🚀 Manual mask annotation slowing you down?
💡 SAMJ is a new ImageJ/Fiji plugin using Segment Anything (SAM) for fast, interactive segmentation — no GPU needed, one-click install, real-time results.
🔬 Perfect for large biomedical images.
arxiv.org/abs/2506.02783
#AI #Bioimaging #ImageJ #OpenSource

El Capitan, from Series: The United States, by Yoshida Hiroshi, 1925

Endinsa’t en una vivència sensorial única que connecta ciència i art immersiu. “SEEING: Un ull i una caixa” arriba del 5 al 14 de juny al Centre Cívic Convent de Sant Agustí (Carrer del Comerç 36, Barcelona). www.crg.eu/en/event/see...

Diving “Google earth mode 🌍” in a Shigella infected cell 🔬🔎
Together with @m-albert.bsky.social

🚨Paper alert!
🚀 We presented SINETRA at #ISBI2025 in Houston
A new simulator for generating realistic 2D/3D neuron tracking data in moving animals like Hydra vulgaris
🧠 Helps test and improve tracking algorithms under tough conditions
📄 dx.doi.org/10.1109/ISBI...
#celltracking #syntheticdata #ISBI

Evolution and origins of multicellularity across the tree of life The study of the origins and evolution of multicellularity in different lineages has recently captured the attention of many research groups and is fueling the generation of numerous innovative resea…

Sign ups for the fall Barcelona multicellularity meeting are now up- come join us!

meetings.embo.org/event/25-mul...

Two heads, toroid shape or a mix of both are the creatures that @yamini-ravichan.bsky.social was able to form inducing soft compression in Hydra. GFP-Lifeact in the regenerating tissue of Hydra #fluorescenceMonday #fluorescencemonday #fluorescencefriday #microscopy #hydra

and with the uniform Laplacian we get a quite funny artefact! (most likely due to the straight cut from the midbrain, which has a few very large triangles)

Exciting news! 🎉 We propose Spatiopath, a null-hypothesis framework for cell-cell & cell-tumor interactions that distinguishes statistically significant immune cell associations from random ones.📊🔬
Check it out:😊 www.nature.com/articles/s41...
#statistics #immunology #oncology

Thank you to the team at @syGlass for highlighting some of our data. If you haven’t tried working with your data in VR space, you really need to see what you are missing. Syglass is a powerful tool for visualizing and analysis. @vubasicsciences.bsky.social #microscopy #lightsheet #science 🧪

Image shows leaf (black) wood (red) separation by PointsToWood on an unseen tropical forest dataset from Cameroon. Even though we only trained on European forest data, the diversity and high quality of our training dataset results in excellent performance in other biomes.

Our new paper and software tool PointsToWood is out! Led by Harry Owen and Targeted at high performance for small branches, PointsToWood performs #deeplearning enabled leaf-wood semantic segmentation of high resolution #TLS point clouds. 🌿 🌲 🌳

👇performance on unseen tropical data

How to Let Your Body Do the Talking Instructions for those with up to eight arms.

Today's newsletter is for people and cephalopods who don't know what to say: elizabethgpreston.substack.com/p/how-to-let... 🧪

Swirling Skies and Melting Icebergs The remote South Sandwich Islands can disrupt passing clouds in ways that shed alternating rows of cloud spirals.

🧪🛰️

My colleague @simoncarn.bsky.social and I were consulted for this note by @avoiland.bsky.social to comment on volcanoes and clouds in the South Atlantic.

A nice place to study aerosol-cloud interactions! (and other things of course)

earthobservatory.nasa.gov/images/15404...

Plaque de la rue De Saussure avec la moitié du visage de Médéric devant.

Un peu arbitraire comme nom de rue mais il fallait que je vous fasse un signe.

Love pretty biology pix! Vote now.🧪

Daily briefing: The second X chromosome isn’t so silent after all The US National Institutes of Health is terminating swathes of diversity- and climate-related grants. Plus, the second X chromosome in female cells might explain why women tend to be more resilient to...

www.nature.com/articles/d41...

A woolly mouse (left) next to an ordinary one. CREDIT: Colossal Biosciences

Genetically altered 'woolly mice' express several mammoth-like traits, including the animal's iconic coat. The cuteness, meanwhile, is a complete coincidence. That and more of the best in @science.org and science in this edition of #ScienceAdviser: www.science.org/content/arti... 🧪

#Hydravulgaris #GCaMP

👉To classify the dynamic behaviors governing biological particles, we developed a neural network model based on geometric trajectory descriptors and a framework to robustly detect dynamic changes in compound trajectories.
#simulation #activationpathwayofreceptorsCCR5
👉 hal.science/hal-04870375v1

Hydra can inflate its floater and then be transported by the water currents

A shrimp eaten by a hydra I Hydra vulgaris

Fibronectin induces a transition from amoeboid to a fan morphology and modifies migration in Entamoeba histolytica Author summary Even though we know increasingly well how cells move in tissues, the question of whether parasites modify their migration as a function of the host tissue environment requires further i...

👉 E. histolytica adopts a fan-shape morphology on a Fibronectin substrate 🔬

journals.plos.org/plospathogen...

Spot detection @Icy_bioimaging

3D view of macropinosomes I Entamoeba histolytica

PI Kinase-EhGEF2-EhRho5 axis contributes to LPA stimulated macropinocytosis in Entamoeba histolytica Author summary Entamoeba histolytica is an enteric parasite in humans, which leads to various pathologies like dysentery, diarrhoea and abscess formation. Host cells are known to secrete chemokines an...

Better understand macropinocytosis of Entamoeba histolytica: Drink or Drive
@Icy_BioImaging

journals.plos.org/plospathogen...

Amoeba Warhol

3D rendering of adhesive structures
#actin #Entamoebahistolytica @Icy_BioImaging