Local heterogeneity of tissues can define their function and predict clinical outcomes. We introduce Kasumi 💻biorxiv.org/content/10.110… to identify spatially localized neighborhoods of intra and intercellular relationships from spatial omics persistent across samples & conditions

If you are interested in neighborhood analysis to identify the clinical relevance of higher order tissue organization in the tumor microenvironment from spatial multiplexed omics data Jovan Tanevski and Felix J. Hartmann are recruiting an interinstitutional Health + Life Science Alliance Heidelberg Mannheim postdoc

If this sounds interesting to you and you happen to look for a new position, with Felix J. Hartmann we are hiring an interinstitutional postdoc to work with us in Heidelberg on capturing and exploring higher order tissue organization from highly multiplexed omics data.

🚨🚨🚨The 3rd annual Spatial Biology Summit is set for Sept 10-12 at Stanford! Join us for talks by experts in MIBI, MSI, CODEX, IMC, Spatial Transcriptomics, computational methods, and more. Stay tuned for details! Michael Angelo Bendall Lab Davide G. Franchina Cameron Walker #sbs2024

#ERCAdG für zwei DKFZ-Forschende!👏 Hannah Monyer (DKFZ, Universitätsklinikum Heidelberg) forscht zur Entstehung von neurodegenerativen Erkrankungen, @platten_michael (DKFZ, Universitätsmedizin Mannheim) zu personalisierten zellulären Immuntherapien gegen Hirntumoren. European Research Council (ERC) ➡️ t1p.de/0b8kh

Our view on the future opportunities and needs for analyzing cellular metabolism in individual cells and tissues! Hope you enjoying reading it 🙂

Currently at the inaugural two-day @dkfz junior group leader retreat, advancing #cancer research from discovery to therapy. A bright future awaits with highly motivated next-gen scientists at the helm. 🧬🔬 #CancerResearch #NewPI #InnovationInScience VomLaborInDiePraxis

I am incredibly happy to share that we have recently started the European Society for Spatial Biology (ESSB) European Society for Spatial Biology which will be hosting its first conference in Berlin 12-13 of December 2024: spatialbiologysociety.eu

I'm super excited to share Nimbus, our algorithm for automatic classification of cellular marker expression in multiplexed image data! Nimbus is a pretrained deep learning model that works out of the box across panels with any combination of markers (1/x) biorxiv.org/content/10.110…

Today we celebrate a 6 year extension for Epithelium Microenvironment Interaction Lab @ DKFZ as junior research group! Many thanks for the trust and this opportunity to expand our #biomedical #engineering and #cancer #prevention work on the #tumor #microbiome DKFZ. Perfect moment to say THANK YOU to everyone... (1/8)

1/4 Is it possible to perform end-to-end computational analysis on multiplexed images with minimal programming experience? Yes, it is! We present SPACEc, A Streamlined, Interactive Python Workflow for Multiplexed Image Processing and Analysis. Paper: doi.org/10.1101/2024.0…

📣 Thrilled to announce that our postdocs Marc-A. Bärtsch, Nina Prokoph,PhD & Alexandra Poos, PhD together with Felix J. Hartmann, have received Sanofi iAwards Europe funding support for their project sanofi.com/en/our-science… (1/2)

Preprint alert! We profiled immune organization in sentinel lymph nodes (sLNs) of melanoma patients using spatial proteomics and spatial transcriptomics, and found that it is prognostic of distant metastases: biorxiv.org/cgi/content/sh…

I’m super excited to share what I’ve been working on for the last (many) years: a spatial + genomic + transcriptomic characterization of how the breast cancer microenvironment evolves through immunotherapy! (1/x) biorxiv.org/content/10.110…

Kasumi identifies local patterns in tissue patches in spatial omics data Jovan Tanevski Saez-Rodriguez Group #BiotechNatureComms nature.com/articles/s4146…

I received some old microscopy slides from 1800s, when at-home microscopes made it possible to look at hidden worlds of diatoms, polycystina + other teeny tiny things. I made this website so people today can take a look too: microspeci.men Enjoy! #scienceisforeveryone

I'm thrilled to share our new paper in Nature Immunology! Spatial proteomics of Alzheimer’s disease-specific human microglial states: tinyurl.com/microgliaz — the culmination of my postdoc at Stanford University Stanford Medicine in the Bendall Lab and lab of Thomas Montine! 🧠✨

Excited to see this out: A spatial atlas of human gastrointestinal acute GVHD reveals epithelial and immune dynamics underlying disease pathophysiology science.org/doi/10.1126/sc…