Do you work with microscopy images and segment to quantify or track? Do you study cell biology? development? Gather round! Let me tell you about FOCUS-3D, a segmentation algorithm that is fast, accurate and can be used on any model. We used it here to study zebrafish development. 🧪 (thread)

FOCUS‑3D: Robust, generalizable volumetric cell segmentation for three‑dimensional fluorescence microscopy

Understanding how cells establish spatial organization within tissues is a fundamental question in life sciences. While modern three-dimensional fluorescence microscopy captures large-volume tissue ar...

biorxiv.org

This week's job opportunities on the Node: PhD Positions in Tissue Formation and Spatial Omics at @yinanwan.bsky.social's lab thenode.biologists.com/jobs/phd-pos...

PhD Positions in Tissue Formation and Spatial Omics - the Node

The Wan Laboratory at the Center for Integrative Genomics (CIG), University of Lausanne, invites applications from highly motivated students interested in developmental biology, quantitative biology, ...

thenode.biologists.com

Might cerebellar disinhibition underlie Restless Legs Syndrome symptoms? Will Joo found that loss of the RLS-associated gene meis1b perturbs locomotion in zebrafish by disinhibiting cerebellar output. www.sciencedirect.com/science/arti...

1/11 Excited to share my postdoc work from @schierlab.bsky.social and Rainer Friedrich! 🐟👃 How does the brain decide whether an odor is good or bad? In larval zebrafish, we find that odor preference is reflected in spatially cohesive neuronal domains of the olfactory bulb. 🧵

Curious about spatial transcriptomics? 🔬 Join the 2026 V4SDB Student Summer School, September 1–4 in beautiful Budapest 🇭🇺, and gain hands-on experience with this cutting-edge technology. 🧬 Apply by June 21! 🔗 v4sdb.org/2026-v4sdb-s...

Excited to share that I will start my lab at the Center for Integrative Genomics in Lausanne @unil.bsky.social in Jan 2027! I’m looking for PhD students fascinated by how cells build tissues and excited about developing new technologies to study development across scales. www.wanlab.bio/pages/9397

Yinan Wan Lab | UNIL CIG - Join us!

wanlab.bio

With this “Behind the paper” story, I’d like to give special thanks to two remarkable contributors whose generosity made a big difference: @jialinliu.bsky.social for the scMultiomics data behind the multiomic atlas, and Guoqiang Yu’s group for sharing ITEC cell tracking, which enabled MERFISH-FATE.

the Node@the-node.bsky.social · 5mo ago

From fate to form: the journey to whole-embryo spatial transcriptomics In this 'Behind the paper' feature, @yinanwan.bsky.social shares the inside story of an ambitious journey with @schierlab.bsky.social & co. thenode.biologists.com/from-fate-to...

A long-term collaboration finally coming together. Looking forward to seeing how people use it!

MadScientist@mads100tist.bsky.social · 6mo ago

It's out! Happy to present ITEC, a semi supervised algorithm with an extremely low error rate that can track cells in files of any size (think Terabytes!). We used it in many organisms, including zebrafish, to study how organs form and linked it to gene expression www.biorxiv.org/content/10.6... +🧪

Embryogenesis in 4D: a developmental atlas for genes and cells 🧪 @schierlab.bsky.social developed a new method (#weMERFISH) that visualizes the activity of hundreds of genes across the entire zebrafish embryo with subcellular resolution. lnkd.in/eHY5gXDx @erc.europa.eu @snsf.ch @unibas.ch

Very grateful to everyone who made this work possible. I feel incredibly lucky to have worked with such an amazing team. Special thanks to: Jakob El Kholtei, KJ Jenie, @mcolomerr.bsky.social, and of course our wonderful collaborator Bogdan Bintu and my mentor @schierlab.bsky.social

Alex Schier @schierlab.bsky.social · 6mo ago

Very happy to see this out. 👏 @yinanwan.bsky.social Bogdan Bintu and team. Whole-embryo spatial transcriptomics at subcellular resolution from gastrulation to organogenesis | free link Science www.science.org/eprint/5MHTM...

Join us 15 October to hear from two early-career researchers, @osvaldoics.bsky.social & Yinan Wan, working on development across scales. Chaired by @dev-journal.bsky.social Executive Editor @amjeve.bsky.social. 📅 15 October, 09:00 BST (UTC+1) Register here: us02web.zoom.us/webinar/regi...