The wait is over!! We are thrilled to announce that we have chosen Spatial Proteomics as 2024’s Method of the Year! 🥳 For more on Spatial Proteomics and a road map to this special issue, please see this month’s Editorial or read on in this thread. nature.com/articles/s4159…

Exciting news - Spatial Proteomics is Nature Methods’ 2024 Method of the Year! Our commentary highlights how Deep Visual Proteomics (DVP) unites imaging, data science & high-res proteomics at single-cell resolution, fueling predictive tissue models and personalized medicine. Stay

We are #hiring again! Join our ambitious and growing team at the BioInnovation Institute (BII) in Copenhagen and help pioneer the era of #SpatialMedicine. Role 1.) bit.ly/3P0kcRu, 2.) bit.ly/3Dl4DkH, 3.) bit.ly/4iByuWb, 4.) bit.ly/3ZToJLE

Spatial MOtif REcognition (SMORE) is now peer-reviewed and out at Genome Biology Updates include analysis of sequencing-based spatial transcriptomics (Slide-Seq) and a whole brain dataset with ~4 million cells, showing versatility and scalability of SMORE. genomebiology.biomedcentral.com/articles/10.11…

Online Now: Deciphering functional tumor-immune crosstalk through highly multiplexed imaging and deep visual proteomics dlvr.it/THM62z

⚡️Announcing UNI 2: Over the past nine months its been humbling to see how UNI (rdcu.be/dBMgh) and CONCH (rdcu.be/dBMf6) our two foundation models for computational pathology have been downloaded >1 Million times and used in >400 studies. Today we are excited

News from the Matthias Mann Lab in Molecular Cell: Multiplexed imaging-powered Deep Visual Proteomics offers deeper insights into the tumor microenvironment by mapping 21 cell populations and quantifying thousands of proteins in each, revealing critical tumor-immune interactions. Huge

✨📣Introducing THREADS: a multimodal foundation model for pathology trained on paired histology and genomic data 🔬+🧬 We show that: (a) THREADS achieves SOTA performance on >50 tasks in oncologic pathology with much less pre-training data than other models, highlighting the

Announcing PathoSAM, our foundation model for nucleus segmentation in histopathology. PathoSAM supports interactive and automatic nucleus segmentation (instance and semantic). See segmentation on a WSI from openslide, check out arxiv.org/abs/2502.00408 or read on for details.

Segment Anything for Microscopy (μSAM) is based on Segment Anything, the vision transformer model for image segmentation, and offers generalist models for light and electron microscopy segmentation tasks. Constantin Pape Anwai Archit Genevieve Buckley Sushmita Nair nature.com/articles/s4159…

Deep visual multi-omics in action! Horvath Lab's research offers a clearer view of the molecular factors driving aggressive kidney cancer. #DVP

Excited to see our work highlighted by Meta AI at Meta! Including UNI (nature.com/articles/s4159…) and PathChat (nature.com/articles/s4158…). ai.meta.com/blog/mahmood-l…

Entering the era of deep single-cell proteomics nature.com/articles/s4159…

Deciphering functional tumor-immune crosstalk through highly multiplexed imaging and deep visual proteomics dlvr.it/TJPCFc

One year since releasing UNI and CONCH, our computational pathology models have 1.4M+ downloads, have been used by hundreds of studies, and unlocked unique capabilities. Update here: linkedin.com/pulse/one-year…

Cell-type deconvolution methods for spatial transcriptomics🤟 nature.com/articles/s4157…

Our survey on *Combining spatial transcriptomics with tissue morphology* available Nature Communications ! We frame it around two strategies: 🔁 Translation – predict gene expression from H&E ➕ Integration – use morphology to enrich spatial transcriptomics doi.org/10.1038/s41467…

A really nice paper out today from the Wang lab describing OmiCLIP, a visual–omics foundation model linking H&E images and transcriptomics, and the associated Loki analysis toolkit. nature.com/articles/s4159…

Very happy to share our new paper on LLM-based tumor board agents. Submitted August 2024, published in Nature Cancer today ☺️ Led by Dyke Ferber nature.com/articles/s4301…

New bioRxiv ! With Dr. Maitra Anirban Maitra (MD Anderson Cancer Center) & Nebraska Rapid Autopsy Program, we used AI-powered Deep Visual Proteomics to map early molecular changes in pancreatic cancer precursor lesions. Read: bit.ly/4nAqPK8 #SpatialMedicine #PDAC