Do you want to do your #postdoc in #cancerresearch with the most prestigious fellowship in Europe? Apply to DKFZ #MSCA MasterClasses by May 18. 26 Projects in cancer research including #cellandmolecularbiology #genomics #bioinformatics #immunology. @horizoneu.bsky.social 👉Apply here: t1p.de/nx6tu

🚨 new glioblastoma preprint alert! we present the first spatially resolved single cell atlas comparing radionecrotic changes (RN) and recurrent IDH-wildtype glioblastoma (GB) –– shedding light on a long-standing diagnostic challenge. 🧵 1/

Join us: With @abigailsuwala.bsky.social we are looking for a postdoc to drive our spatial transcriptomics analysis efforts of brain tumours. If you enjoy multidisciplinary biomedical research, big data and coding, you are in the right place. karriere.klinikum.uni-heidelberg.de/index.php?ac...

A spatial transcriptomics analysis led by my student Zaira reveals the distinct nature (gene expression, tumour cell states and local microenvironments) of radionecrosis and recurrence in glioblastoma. 👏

zaira seferbekova 👾@zaira-sef.bsky.social · 10mo ago

🚨 new glioblastoma preprint alert! we present the first spatially resolved single cell atlas comparing radionecrotic changes (RN) and recurrent IDH-wildtype glioblastoma (GB) –– shedding light on a long-standing diagnostic challenge. 🧵 1/

Scientists from @embl.org and DKFZ have developed an AI model that assesses the long-term individual risk for more than 1,000 diseases. The model can predict health events over a period of more than a decade. @moritzgerstung.bsky.social @nature.com t1p.de/zmjfg

AI model predicts disease risks decades in advance

Scientists from the European Molecular Biology Laboratory (EMBL) and the German Cancer Research Center (DKFZ) have developed an AI model that assesses the long-term individual risk for more than 1,000...

t1p.de

What if you could get a glimpse of the future of your health, today? Our scientists have developed a new generative AI model, trained using large-scale health records, that can estimate how human health may change over time. Watch to find out more. 🖥️🧬

This is a great set of methods for studying combinatorial effects of cancer mutations on spatial phenotypes. Clever experimental design by @breinigmarco.bsky.social hijacking Visium and elegant analysis by @lomakinai.bsky.social and @elihei.bsky.social www.nature.com/articles/s41...

Integrated in vivo combinatorial functional genomics and spatial transcriptomics of tumours to decode genotype-to-phenotype relationships - Nature Biomedical Engineering

A method integrates perturbation mapping with 10X Visium spatial transcriptomics to map tumour genetic complexity and heterogeneity.

nature.com

How does tumour heterogeneity arise? How can we predict cancer cell plasticity? In 2 new studies, we trace #glioblastoma heterogeneity to a spatial cancer cell trajectory w. multimodal cell atlassing bit.ly/4mkrWgs & predict plasticity w. snRNA/ATAC+deep learning bit.ly/3FbI6Ic 🧵

Spatial biology of cancer evolution go.nature.com/44hbib6 #Review by Zaira Seferbekova, @lomakinai.bsky.social, Lucy R. Yates & @moritzgerstung.bsky.social Free to read here: rdcu.be/c1jwe

Spatial biology of cancer evolution - Nature Reviews Genetics

In this Review, the authors discuss our latest understanding of the spatial aspects of cancer evolution, including the roles of cancer subclonal structure, tissue architecture, and interactions betwee...

go.nature.com

Some classical statistics today. ebmstate, an R package for multistate models with empirical Bayes covariate effect estimation. Developed by Rui Costa during his postdoc in my group. doi.org/10.32614/RJ-...

From great collaborations come great things. Excited to share Segger, the solution to segmentation of spatial transcriptomics (ST) data, with the @steglelab.bsky.social and @moritzgerstung.bsky.social labs, spearheaded by the great Andrew Moorman and Elyas Heidari www.biorxiv.org/content/10.1...

Segger: Fast and accurate cell segmentation of imaging-based spatial transcriptomics data

The accurate assignment of transcripts to their cells of origin remains the Achilles heel of imaging-based spatial transcriptomics, despite being critical for nearly all downstream analyses. Current c...

biorxiv.org

1/ New preprint! 🍳 @elihei.bsky.social and our team at @embl.org , @dkfz.bsky.social, and @mskcancercenter.bsky.social built #segger - a fast, accurate cell segmentation tool for spatial transcriptomics that assigns transcripts to their cell origins! doi.org/10.1101/2025...

Spatial transcriptomics holds great promise to understand biological tissue function, but the assignment of transcripts to cells has been a substantial bottleneck. For this reason, Elyas Heidari, a student in my lab and in @steglelab.bsky.social built segger. www.biorxiv.org/content/10.1...

New preprint! We worked with @msftresearch.bsky.social and @broadinstitute.org to see whether large language models (LLMs) can be useful to variant scientists in deciding whether genetic variants seen in a patient are responsible for their disease. tl;dr yes they can: www.biorxiv.org/content/10.1...

Evidence Aggregator: AI reasoning applied to rare disease diagnostics

Retrieving, reviewing, and synthesizing technical information can be time-consuming and challenging, particularly when requiring specialized expertise, as is the case of variant assessment for rare di...

biorxiv.org

Looking forward to @moritzgerstung.bsky.social seminar @uob-ieu.bsky.social on 30th Jan 2025 at 1pm, ,“ Using AI to Predict Disease Risks” in person and on line bristol-ac-uk.zoom.us/j/94273829130

Resharing here a recent X post. In this preprint, we introduce an improved version of NanoSeq, a duplex sequencing protocol with <5 errors per billion bp in single DNA molecules, and use it to study the somatic mutation landscape of oral epithelium in >1000 people. 1/ www.medrxiv.org/content/10.1...

Somatic mutation and selection at epidemiological scale

As we age, many tissues become colonised by microscopic clones carrying somatic driver mutations ([1][1]–[10][2]. Some of these clones represent a first step towards cancer whereas others may contribu...

medrxiv.org

We strongly suggest that academic publishers and other platforms that host research rapidly implement a Share to Bluesky button for their articles. Here's how: docs.bsky.app/docs/advance... #AcademicSky #HigherEd #Altmetrics

Action Intent Links | Bluesky

Authors, websites, and apps can use action intent links to implement "Share on Bluesky" buttons, or similar in-app actions. Logged-in users will be directed to the corresponding action view in the Blu...

docs.bsky.app

5:20 start this morning for a virtual talk at the WEHI in Melbourne, covering: * Cancer risk models * Delphi multi-disease genAI * Paion, a new brain tumor digital pathology algorithm Summary below:

New at Science Evo, a large language of life (LLLM) genomic foundation model, predicting & generating tasks from molecular to genomic scale science.org/doi/10.1126/...

Long-term collaborator @ewanbirney.bsky.social is recruiting a joint postdoc with us to work on extensions of our Delphi generative health model. The post is based in Cambridge, UK. www.embl.org/jobs/positio...

EMBL Jobs

We offer a wide range of challenging scientific and non-scientific positions at all of our European locations and encourage applications from international candidates at all career levels.

embl.org