Moritz Gerstung
@moritzgerstung.bsky.social
Scientist developing AI for oncology. Division head at the German Cancer Research Centre DKFZ. Prof at the University of Heidelberg, Germany. Previously at EMBL-EBI and Wellcome Sanger Institute. Alumnus of ETH Zurich.
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. 👏
🚨 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/
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/
October 7, 2025 at 5:12 AM
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. 👏
Reposted by Moritz Gerstung
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
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
September 18, 2025 at 2:19 PM
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
t1p.de/zmjfg
Reposted by Moritz Gerstung
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.
🖥️🧬
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.
🖥️🧬
September 17, 2025 at 3:23 PM
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.
🖥️🧬
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...
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.
www.nature.com
July 29, 2025 at 5:51 AM
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...
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...
Reposted by Moritz Gerstung
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 🧵
May 16, 2025 at 11:44 AM
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 🧵
Reposted by Moritz Gerstung
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
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
April 29, 2025 at 12:24 PM
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
Free to read here: rdcu.be/c1jwe
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-...
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-...
March 20, 2025 at 2:03 PM
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-...
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-...
Reposted by Moritz Gerstung
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...
www.biorxiv.org
March 20, 2025 at 11:40 AM
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...
Reposted by Moritz Gerstung
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...
@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...
March 18, 2025 at 2:48 PM
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...
@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...
For this reason, Elyas Heidari, a student in my lab and in @steglelab.bsky.social built segger.
www.biorxiv.org/content/10.1...
March 17, 2025 at 4:19 PM
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...
For this reason, Elyas Heidari, a student in my lab and in @steglelab.bsky.social built segger.
www.biorxiv.org/content/10.1...
Reposted by Moritz Gerstung
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...
www.biorxiv.org
March 15, 2025 at 2:44 AM
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...
Reposted by Moritz Gerstung
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
Join our Cloud HD Video Meeting
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bristol-ac-uk.zoom.us
January 23, 2025 at 4:46 PM
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
Reposted by Moritz Gerstung
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...
www.medrxiv.org
November 20, 2024 at 2:28 PM
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...
Reposted by Moritz Gerstung
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
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
November 18, 2024 at 2:48 PM
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
docs.bsky.app/docs/advance...
#AcademicSky #HigherEd #Altmetrics
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:
* Cancer risk models
* Delphi multi-disease genAI
* Paion, a new brain tumor digital pathology algorithm
Summary below:
November 18, 2024 at 8:20 AM
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:
* Cancer risk models
* Delphi multi-disease genAI
* Paion, a new brain tumor digital pathology algorithm
Summary below:
Reposted by Moritz Gerstung
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/...
Evo, a large language of life (LLLM) genomic foundation model, predicting & generating tasks from molecular to genomic scale
science.org/doi/10.1126/...
November 14, 2024 at 7:16 PM
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/...
Evo, a large language of life (LLLM) genomic foundation model, predicting & generating tasks from molecular to genomic scale
science.org/doi/10.1126/...
Reposted by Moritz Gerstung
Delphi is cool: nanoGPT, adapted to generate (clinical ontology term, waiting time) tuples i.e. a continuous time Markov chain on clinical ontology terms, trained on patient histories. Predicts conditions on par with clinical indicators in current practice.
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...
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.
www.embl.org
November 15, 2024 at 2:42 PM
Delphi is cool: nanoGPT, adapted to generate (clinical ontology term, waiting time) tuples i.e. a continuous time Markov chain on clinical ontology terms, trained on patient histories. Predicts conditions on par with clinical indicators in current practice.
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...
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.
www.embl.org
November 15, 2024 at 12:14 PM
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...
The post is based in Cambridge, UK.
www.embl.org/jobs/positio...