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So excited to announce our new method for multiplexed RNA imaging in bacterial cells: bacterial-MERFISH! A huge congratulations to the team of Ari Sarfatis, Yuanyou Wang, and Nana Twumasi-Ankrah! Check out the following thread or our bioRxiv (biorxiv.org/content/10.110…) 1/12

Come and join us! Lots of cool psatial data and interesting questions to drive our knowledge on duchenne therapies

A great DIY guide for image-based spatial transcriptomic from Florian Mueller and team at Institut Pasteur, since 1887 biorxiv.org/content/10.110…

Systematic comparison of sequencing-based spatial transcriptomic methods | Nature Methods nature.com/articles/s4159…

Cool evolution of spectral barcoding for RNA in situ: biorxiv.org/content/10.110…

🗺 Introducing Nova-ST, a new open-source platform for high-resolution spatial transcriptomics! ⚡ Developed in the @steinaerts lab, Nova-ST will make large-scale, high-resolution spatial tissue analysis more accessible and affordable. Find out more ➡️ cbd.sites.vib.be/en/news#/news/…

Happy to see our work, Nova-ST, a new open-source platform for high-resolution spatial transcriptomics published in Cell Cell Reports Methods cell.com/cell-reports-m… 👇

🚨𝐇𝐞 𝐋𝐚𝐛 job opportunity UC San Francisco 🚨: I'm hiring TWO postdocs - an experimentalist and a computational biologist. Join us to use cutting-edge single-cell and spatial technologies to unravel the mysteries of human tissues. opportunities.ucsf.edu/content/open-p…

🚀 The Segment Anything Model (SAM) has been upgraded to SAM2, featuring an efficient image encoder for segmenting images and videos. But does SAM2 outperform SAM1 in medical image and video segmentation? We're thrilled to present our paper "Segment Anything in Medical Images

🎉 Exciting news! Our latest work is now published in Development! The open-source solution for RNA-targeted in situ sequencing provides an accessible and efficient method for spatially resolved gene expression analysis and spatial multi-omics. 🔗 doi.org/10.1242/dev.20…

Interested in navigating #metabolism in space and time? Meet uMAIA (the Unified Mass Imaging Analyzer) - a framework developed in collaboration with Giovanni D'Angelo & oaties EPFL Life Sciences led by Halima Hannah Schede & Leila #omics #lipidtime #MALDI biorxiv.org/content/10.110… 1/N

Our paper ‘Whole-embryo Spatial Transcriptomics at Subcellular Resolution from Gastrulation to Organogenesis’ is now on biorxiv! We introduce weMERFISH, a platform for profiling gene expression in entire embryos at subcellular resolution. Here is🧵biorxiv.org/content/10.110… (1/12)

Long awaited (thanks James Manton for posting the patent application!) and now out in Science Magazine: Using absorption to look deeper by HongLab - they achieved approx. 3 mm depth using the food dye tartrazine: #Microscopy science.org/doi/10.1126/sc…

7 years ago, I met a junior fellow named Jason Buenrostro who blew me away with a vision of futuristic genomic technologies Today, we (Ajay Labade, @carolinecomenho) are excited to share our first steps into that future: Expansion in situ genome sequencing 1/

our work on vitessce is out in Nature Methods!

Thrilled to report Patho-DBiT, just published in Cell 😊. It allows us to directly “see” all kinds of RNA species on the same clinical FFPE tissue slide, including mRNA, miRNA, snRNA, snoRNA, tRNA, etc, and splicing isoforms, genetic alterations (SNV, CNV, etc). Really a fun,

STAMP: Single-Cell Transcriptomics Analysis and Multimodal Profiling through Imaging | bioRxiv ⁦Dr. Jasmine Plummer 👩🏻‍🔬🧬🇨🇦🇺🇸⁩ ⁦Holger Heyn⁩ ⁦@pascual_reguant⁩ ⁦@eliseinsing⁩ ⁦CNAG⁩ ⁦Adelaide Centre for Epigenetics⁩ ⁦St. Jude Research⁩ biorxiv.org/content/10.110…

Do you want to learn more about Spatial Omics data analysis? Please join our course 21-24Jan in Lausanne! Link below.

We are thrilled to share that our first paper from my new lab, Spateo (github.com/aristoteleo/sp…) for spatiotemporal modeling of molecular holograms, is now online in Cell: cell.com/cell/fulltext/…. Spateo is a comprehensive analytical framework for 3D whole-embryo spatiotemporal

This light-sheet microscopy three-dimensional rendering shows a first-of-its-kind mouse whole-brain mRNA analysis at single-cell resolution. Learn more in this week’s issue: bit.ly/3CCapy5