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Ricardo Henriques

@henriqueslab.bsky.social

@AIOpticalBioLab.bsky.social. Group Leader #ITQB & H. Prof #UCL. #Nanoscopy & #AI for #LifeSciences. #SRRF sensei. #ERCCoG, #EMBO member. Dad. Opinions my own - henriqueslab.org -

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MadScientist@mads100tist.bsky.social · 2w ago

May I suggest Yinan's paper for the "scarce labeled datasets" bottleneck (basically, using tracking to infere future state, then use tracking to map it back to the previous state. We called it weMERFISHfate) www.science.org/doi/10.1126/...

Whole-embryo spatial transcriptomics at subcellular resolution from gastrulation to organogenesis

Gene expression patterns underlie development, but their systematic detection in whole embryos has remained elusive. We introduce a whole-embryo imaging platform using multiplexed error-robust fluores...

science.org

Constantin Pape@cppape.bsky.social · 3w ago

Segmenting individual cells in microscopy is much easier these days thanks to foundation models. Can we use these models for other tasks, such as cell classification? We investigate in our latest work, finding big improvements for object and pixel classification compared to classical approaches.

Evaluation of different methods for pixel classification (top) and object classification (bottom) on the LIVECell dataset. Dark green bars show the F1-Score, which measures the classification / segmentation quality (higher is better), light green bars show the runtimes. Five different settings are compared for each task: Ilastik features + random forest (RF), microSAM embeddings + RF, SAM2 embeddings + RF, and uSAM, SAM2 + attentive probing (DeAP and ObAP). microSAM feature perform best for RF based methods, attentive probing outperforms RF based approaches, but at a much higher runtime.
Kevin Dean@kevin-dean.bsky.social · 3w ago

New preprint! Using multiscale ExM/OPM/ASLM, we show that oncogenic drivers leave distinct 3D architectural fingerprints in intact liver tissue: NRAS primarily remodels cell shape, whereas CTNNB1 shifts mitochondrial architecture toward a pericentral-like state. tinyurl.com/kepy33m6

Deciphering the Multiscale Morphology of Somatic Oncogenic Alterations in Hepatocellular Carcinoma

Somatic oncogenic mutations are typically defined by their molecular alterations, yet how they reorganize cellular architecture within intact tissues remain largely unknown. Here, we demonstrate that ...

biorxiv.org

@taylashakespeare.bsky.social · 3w ago

Our paper is now featured in focal plane! Check it out if you're looking for a platform to predict and plan imaging experiments before entering the microscope room! Very proud to be a part of this project - biggest congratulations to the team @henriqueslab.bsky.social who made this happen 🔬🛠️

FocalPlane @focalplane.bsky.social · 4w ago

🔬🔦In our latest Imaging spotlight, Damián Martinez, Bruno Saraiva, @taylashakespeare.bsky.social @mariodelr.bsky.social & @henriqueslab.bsky.social introduce VLab4Mic, an open-source platform that allows researchers to optimise microscopy experiments before performing them.

Ricardo Henriques@henriqueslab.bsky.social · 4w ago

Timely callout to #RxivMaker. With rxiv-maker you write in Markdown and the tool generates the LaTeX, so author comments and to-do notes never reach the source files you upload to arXiv. We built it for easy writing with amazing formatting, avoiding this leak is a welcome side effect

Nature@nature.com · 4w ago

Passwords, GPS coordinates and private conversations have all been found in the metadata and source files of millions of preprint submissions go.nature.com/4fwKh7B

Ricardo Henriques@henriqueslab.bsky.social · last mo.

Nuclei as constellations 🔭 #NucleiSky aligns microscopy images across modalities and scales by reading nuclei like stars to map between them. Joy to contribute, led by @ivanhcenalmor.bsky.social and @guijacquemet.bsky.social's team. #RxivMaker powered preprint. Check it out!

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Guillaume Jacquemet@guijacquemet.bsky.social · last mo.

Delighted to share our latest preprint "NucleiSky enables cross-scale multimodal registration of microscopy data using nuclei constellations" www.biorxiv.org/content/10.6... Code and App: github.com/CellMigratio...

Heilemann Lab@heilemannlab.bsky.social · 2mo ago

👇🏻 don't miss this one if you're into single-molecule microscopy, computational/AI analysis tools and new discoveries in biology 🔬 www.smlms.org

SMLMS 2026 – Stockholm

smlms.org

Ricardo Henriques@henriqueslab.bsky.social · 2mo ago

SMLM people, ASSEMBLE!! 🔬 The single-molecule localization crowd descends on Stockholm this August (26-28). MINFLUX, DNA-PAINT, blinking dyes, the lot. Properly good line-up and registration's still open. Don't sit this one out 👇 smlms.org

Ricardo Henriques@henriqueslab.bsky.social · 2mo ago

SMLM people, ASSEMBLE!! 🔬 The single-molecule localization crowd descends on Stockholm this August (26-28). MINFLUX, DNA-PAINT, blinking dyes, the lot. Properly good line-up and registration's still open. Don't sit this one out 👇 smlms.org

SMLMS 2026@smlms2026.bsky.social · 4mo ago

Hej! We are excited to announce SMLMS 2026! 🔬✨ Join us in Stockholm 📍🇸🇪 from the 26th to the 28th of August for a great opportunity to connect with the super-resolution microscopy community. Find out more and register 👉 smlms.org #SMLM #Microscopy #SuperRes #Stockholm #conference #SMLMS26