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Cells live and interact in 3D tissues but pathology and spatial omics typically rely on 2D sections... Excited to share our latest efforts in Nikolaus Rajewsky lab to generate a 3D, multimodal atlas of a human tumor! Find out what we learned: video + 🧵! 🔗 bit.ly/3D_lung_cancer

Shout out to your fellow cancer researchers! Please RT, and if you are last year Ph.D., postdoc, or a brand new junior PI, we can wait to hear from you!

Twitter messed up my previous thread, but this is too important to let it slide: Here are (again) my summary & thoughts on early detection & an amazing work Deep learning model trained on 9 million patient records in Denmark & US finds people at risk for pancreatic cancer 🧵🧵

👏Congrats to our #AI expert Prof. Fabian Theis - elected as ISCB Fellow! 💡Prof. Fabian Theis was recognized for his exceptional pioneering work in applying #MachineLearning resulting in significant advancements in AI-based #BiomedicalResearch. 👉t1p.de/2tq4u

Scientific discussion at its best, glad to be part of the moderators in this interesting and very important debate, read both, it’s important nature.com/articles/s4301… nature.com/articles/s4301…

🔜🚨 Less than 2 weeks for abstract submission 💻 Come share with fellow postdocs in cancer research this amazing conference with lots of networking opportunities and terrific keynotes 🤩 Senior #PhDs and #newPI are also welcome! Sounds great, right? Join us and spread the word😉

⏰Abstract deadline has been extended! You can send your abstracts by August 15th! Lots of great scientific exchanges are awaiting, and we would love to have you there 🔜💻

Happy to share our new article 'Multiparameter prediction of myeloid neoplasia risk' now published at Nature Genetics. nature.com/articles/s4158…

Two neighboring cells can be so different! Releasing scDVP - single-cell #DeepVisualProteomics for combined imaging and mass spectrometry-based proteomics in the intact tissue context. One cell at a time. nature.pulse.ly/13a4oy6x1y Nature Methods Here’s a summary! (1/n)

(1/n)scPoli is now published in Nature Methods shorturl.at/jvyL0; see below. scPoli is an open-world learner for multi-scale analysis of scRNAseq/ATAC-seq across samples and species with cell types and conditions hierarchies. With scPoli you can:

Ojalá esta viñeta pase de moda algún día #SiempreForges #LaForgesteca

𝗦𝗰𝗣𝗼𝗹𝗶 𝗘𝗻𝗮𝗯𝗹𝗲𝘀 𝗠𝘂𝗹𝘁𝗶-𝗦𝗰𝗮𝗹𝗲 𝗥𝗲𝗽𝗿𝗲𝘀𝗲𝗻𝘁𝗮𝘁𝗶𝗼𝗻𝘀 𝗼𝗳 𝗖𝗲𝗹𝗹𝘀 𝗮𝗻𝗱 𝗦𝗮𝗺𝗽𝗹𝗲𝘀 👉For a brief insight: Check out our news: 🔗t1p.de/vmtph Fabian Theis Mo Lotfollahi Computational Health Center

This one is particularly heartbreaking

Epigenetic deregulation of IFN and WNT pathways in AT2 cells impairs alveolar regeneration (in COPD) biorxiv.org/cgi/content/sh… #bioRxiv

I am happy to share that Nature Communications has published our latest research from the DKFZ. DNMT and HDAC inhibition induces immunogenic neoantigens from human endogenous retroviral element-derived transcripts Here’s the link to the article: nature.com/articles/s4146… 👇 1/7

Very happy to share Ria Pinioti's work published in Cancer Immunology Research, revealing that #fucosylation is very important for the maintenance of the suppressive function of #Tregs in cancer. Thanks to all the collaborators for the work! CCB_VIB_KUL Department of Oncology - KU Leuven

Did you ever wonder how a cell decides its fate? We review how #repression builds critical guardrails in Waddington's landscape, guiding cells to their fate, and discuss how #safeguard repressors ensure that cells don't stray off-path. DKFZ Uni Heidelberg doi.org/10.1038/s44320…

grefusa.com

Figeno, my visualization tool for genomics🎨🧬, is now published in Bioinformatics! doi.org/10.1093/bioinf… It can generate publication-quality figures for sequencing data along genomic coordinates: bigwig, HiC, Oxford Nanopore data with base modifications, and WGS with CNAs and SVs.

I'm excited to share our preprint "Pyjacker identifies enhancer hijacking events in acute myeloid leukemia including MNX1 activation via deletion 7q": doi.org/10.1101/2024.0…. This is my main PhD work and a massive collaborative effort. 🧵👇