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1/ 📡Exciting news! 🚀 Our #Omega paper has been accepted at @NatureMethods! Omega is a napari🔬 plugin that uses Large Language Models to assist users with bioimage processing and analysis tasks! Check out our original project announcement (see below), read the paper:

During the development of multi-cellular animals, biochemical signals control the organization of cells to set up body axes. In mouse embryonic stem cell aggregates, tissue flows are now found to amplify the formation of such body axes. nature.com/articles/s4156…

A team led by Hallou Lab has built a method to decode how mechanical force and gene expression join together to precisely control cell fate! This method could have exciting implications for diagnosis and treatment strategies and regenerative medicine. kennedy.ox.ac.uk/news/decoding-…

🚨 Paper Alert 🚨 Absolutely delighted to share our last paper on "spatial mechano-transcriptomics" in Nature Methods👇!! nature.com/articles/s4159…

ETH Zurich’s DeepSpot is a breakthrough in spatial transcriptomics. It predicts gene expression from routine H&E slides for scalable, cost-effective analysis. 👇

Paper with Praneet Prakash, Yasa Baig and Francois Peaudecerf on the algae-bacteria microcosm is just out: pnas.org/doi/10.1073/pn…

Very cool work on linking the transcriptome to cell mechanical forces by bianca dumitrascu & colleagues.

(1/n) The first preprint from our lab is now out in Nature Genetics! We tried to tackle a key challenge in spatial biology to quantitatively characterizing cellular niches by learning spatial gene programs using NicheCompas led by Sebastian Birk. Paper: shorturl.at/b4Hjk

Excited to share our new study revealing the intricate dynamics of pregnancy & postpartum physiology! We analyzed 40M lab tests from 300K pregnancies and 160K women (cross-sectional), we mapped week-by-week changes starting from preconception to months-long postpartum recovery.

Spatial mechano-transcriptomics👹 Overlay image-based cell mechanics inference [Segmentation with Multi-junctional molecular avg▶️ Circular arc polygon tiling for cell contacts▶️ Cellular pressure, junctional tension, stress tensor] with imaging-based #SpatialTranscriptomics

Thank you Nature Methods for highlighting our recent paper on "spatial mechano-transcriptomics" in your April issue😀: nature.com/articles/s4159… nature.com/articles/s4159…

A weakly self reactive T cell receptor (magenta) can protect healthy tissue from a runaway CAR (green)! See how in: Engineering TCR-controlled fuzzy logic into CAR T cells enhances therapeutic specificity: Cell cell.com/cell/fulltext/…

EMBO workshop on Single cell Lineage Tracing! Sept 18-21 in Sant Feliu, Girona, Spain. Registration is OPEN!!!!! Tons of opportunities for talks are still available (including full length ones). meetings.embo.org/event/25-linea… #EMBOlineagetracing

Check out our perspective on how multimodal foundation models can accelerate discovery in biology and medicine in nature . Link to the paper: nature.com/articles/s4158… Fun write-up with Bo Wang @HOATIANCUI1 Fabian Theis Alejandro Tejada Lapuerta Julio Saez-Rodriguez Simona Cristea Hani Goodarzi

Thank you for the invitation Sarah Snelling Human Cell Atlas and very much looking forward to it 😀!!

In developing embryos, cells move a lot! Plenty of that movement is random. Is random cell mixing a feature or bug for tissue patterning? Turns out it’s both! Excited to share the 1st preprint from my postdoc w/ Sean Megason Sean McGeary Allon Klein Lab 1/20 doi.org/10.1101/2025.0…

We are delighted to announce that Professor Paul Kubes will deliver the Newton-Abraham Lecture 2025 on 19 May, 16:30-17:30. All members of the University of Oxford are welcome. More details here: talks.ox.ac.uk/talks/id/91d4b…

Excited to share our latest preprint, out today on medRxiv. We leverage the complementary power of Bruker Spatial Biology GeoMx and CosMx platforms to delineate influences upon CD8 T cell accumulation in #cutaneoussquamouscellcarcinoma! medrxiv.org/content/10.110…