Time to announce some big news! I am super excited to join the @DKFZ Heidelberg to start my lab in October this year 🥳 We are going to focus on single-cell analysis and multiplexed imaging to look at anti-tumor immunity. Also hiring so retweet and reach out!

Excited to see this out: A spatial atlas of human gastrointestinal acute GVHD reveals epithelial and immune dynamics underlying disease pathophysiology

I'm thrilled to share our new paper in Nature Immunology! Spatial proteomics of Alzheimer’s disease-specific human microglial states: https://t.co/VvKI36NhfX — the culmination of my postdoc at @Stanford @StanfordMed in the @Bendall_Lab and lab of Thomas Montine! 🧠✨

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: https://t.co/46rKWPx9nK Enjoy! #scienceisforeveryone

Kasumi identifies local patterns in tissue patches in spatial omics data @tanevski @saezlab #BiotechNatureComms https://t.co/0BZNIGmDiX

Get in contact with us for more info on the project and the application process!

Together with @tanevski and @drbetge, we are looking for a computational postdoc interested in the combination of modeling tissue organization patterns from spatial proteomics data in a highly clinically relevant cancer context. Funding available:

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)

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:

📣 Thrilled to announce that our postdocs @marc_a_baertsch, Nina Prokoph,PhD & Alexandra Poos, PhD together with @felixjhartmann, have received Sanofi iAwards Europe funding support for their project https://t.co/iKzbupnTCQ (1/2)

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: https://t.co/SOhn4pK8PF

Today we celebrate a 6 year extension for @EMIL_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)

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)

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

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 @DKTK_

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

#ERCAdG für zwei DKFZ-Forschende!👏 Hannah Monyer (DKFZ, @uniklinik_hd) forscht zur Entstehung von neurodegenerativen Erkrankungen, @platten_michael (DKFZ, @unimedizinma) zu personalisierten zellulären Immuntherapien gegen Hirntumoren. @ERC_Research ➡️ https://t.co/x6n2rEweyj

🚨🚨🚨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! @MikeAngeloLab @Bendall_Lab @b_iologist @Walk14Cameron #sbs2024

If this sounds interesting to you and you happen to look for a new position, with @felixjhartmann 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.

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 @tanevski and @felixjhartmann are recruiting an interinstitutional @ResearchLifesci postdoc

Local heterogeneity of tissues can define their function and predict clinical outcomes. We introduce Kasumi 💻 https://t.co/2xbfYuo39I to identify spatially localized neighborhoods of intra and intercellular relationships from spatial omics persistent across samples & conditions