Two weeks left to apply! We're recruiting a PhD student with @brianfclarke.bsky.social and @junyanlu.bsky.social through HIDSS4Health - see below for details. 👇 Looking forward to your application.

Brian Clarke@brianfclarke.bsky.social · last wk.

Our division is recruiting a PhD student through the Helmholtz Information and Data Science School for Health (HIDSS4Health). The supervision will be joint between me, @oliverstegle.bsky.social and @junyanlu.bsky.social. www.hidss4health.de/application/ → Project ID03 Deadline August 18

Happy to welcome Mădălina to the lab! As a postdoc at @embl.org, she will develop computational methods for spatial omics to investigate how cellular organization and tumor heterogeneity contribute to cancer progression and disease relapse.

Welcome to our team, Tomaz Vieira! He will be working on “SpatialData”, a software framework for processing spatial omics data, and more in general in the data format standardization efforts of the @scverse-team.bsky.social consortium, a research software infrastructure for single-cell biology.

What happens when AI and biology accelerate each other? EMBL Acting Head of AI Centre, Oliver Stegle, discusses how closer integration of these fields could transform the life sciences. Watch this video to learn more. #EMBL_AI

Day 3 of #HMCConference2026 opened with a keynote by Prof Dr Oliver Stegle on how metadata powers large-scale genomic research. The talk showed how interoperable metadata enables data integration, reproducibility, and analysis at scale – making it a core foundation of research infrastructures.

Are you ready to play our special version of pinball? 🕹️ This cover of @natrevgenet.nature.com was inspired by our review on the interpretation, extrapolation and perturbation of single cells. The artwork takes the form of a pinball machine, as a deliberate reimagination of Waddington's metaphor.

5/ Ezgi Sen, a great PhD student in the Rippe and Stegle labs, led the downstream analysis: Atera clearly resolved 15 main cell clusters on one CRC section. Non-malignant epithelium splits into absorptive and secretory lineages with LGR5+ stem cells at the crypt bases.

Two weeks ago, MAIGE group leader @brianfclarke.bsky.social and Katharina, together with Dominik (Steinmetz lab) joined #Perturb2026, exploring new technologies and datasets. Highlight: Katharina’s first short talk on large-scale perturbation screens in cardioids and great discussions at our poster!

Join us for a postdoc in AI in human genetics at @embl.org in close collaboration with Adrian Cortes (GSK) and @brianfclarke.bsky.social - exploring the effects of rare variants using population-scale cohorts and single-cell readouts. 🔗 Apply now: embl.wd103.myworkdayjobs.com/en-US/EMBL/d...

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

Welcome @bbbranjan.bsky.social! His career across single-cell genomics, 🐁 biology and software dev has been about bridging wet-lab with reliable analysis workflows. At @embl.org he will lead a collab with @vrmlnroel.bsky.social on modelling GxE interactions to dissect risk factors for human disease.

We’re excited to announce the 2nd edition of the Health Privacy Challenge. 🍅🫐 What started last year as a CAMDA community challenge has grown into a benchmarking study of generative models for biologically useful and privacy-preserving synthetic omics, focusing on trade-offs across evaluation axes.👇

How do immune disease-relevant variants rewire gene regulation in CD4+ T cells? In a collaboration led by Daniel Schraivogel and Lars Steinmetz at @embl.org, we combined two large-scale CRISPRi screens (4.1M cells) to map the downstream cascades of thousands of SNPs.

We wrapped up our in-person @elsa-ai.eu TrustworthyAI4Health 2026 Workshop at @embl.org on Monday. The workshop brought together experts and a community of enthusiastic researchers to explore pathways for building trust in AI for healthcare. A fuller write-up is coming soon!

📢 3rd Keynote reveal! We’re excited to welcome Prof. Dr. Oliver Stegle as keynote speaker at #HMCConference2026 Director & Co-Spokesperson of #GHGA, @oliverstegle.bsky.social advances secure, #FAIR infrastructures for data-driven biomedical research. 🧬 steglelab.bsky.social ghga.bsky.social

Working on trans-eQTL mapping with population-scale scRNA-seq? Meet LIVI, our latest framework that enables efficient trans-eQTL mapping at single-cell resolution across cohorts of hundreds to thousands of donors. Preprint: doi.org/10.64898/202... Summary in the 🧵 below by @danaivagiaki.bsky.social

Danai Vagiaki@danaivagiaki.bsky.social · 6mo ago

Delighted to present Latent Interaction Variational Inference (LIVI), a framework for trans-eQTL mapping at single-cell resolution that I developed during my PhD together with colleagues from @steglelab.bsky.social 1/n

We are hiring a Research Software Engineer at @embl.org Heidelberg to enhance and maintain open-source infrastructure for spatial omics. 🔗 Deadline: 15/02/2026 embl.wd103.myworkdayjobs.com/en-US/EMBL/d...

Research Software Engineer - Spatial-omics

The Oliver Stegle team and the Bioimage Analysis Support Team at EMBL Heidelberg are looking for a research software engineer to contribute to the development and maintenance of highly-used open-sourc...

embl.wd103.myworkdayjobs.com

Together with Jeroen Krijgsveld, we are looking for a postdoc to help us unlock single-cell proteomics (SCP) through the establishment of a scalable computational framework. For more information, see the @hlsalliance.bsky.social Postdoc Program: www.health-life-sciences.de/opportunitie...

We're organizing a one-day, in-person workshop on trustworthy healthcare AI, with leading experts discussing key dimensions such as robustness, fairness, privacy, explainability, and clinical validation. Register now and submit your poster: elsa-ai.eu/elsa-worksho... 📅 March 9, Heidelberg DE

ELLIS@ellis.eu · 7mo ago

📣 Call for posters for @elsa-ai.eu TrustworthyAI4Health Workshop co-located w/ @embl.org AI & Biology Conference, on topics that advance reliable, clinically aligned AI systems across diverse data modalities and healthcare environments. 📅 Mar 9 📍 Heidelberg 🇩🇪 🔗 https://bit.ly/4pEK3OK #EESAIBio

Fresh off the press in 2026! Interested in the challenge of how to advance from descriptive atlases to causal mechanisms and counterfactuals? 🔬 Take a look at our recent perspective: "Interpretation, extrapolation and perturbation of single cells"! (rdcu.be/eXeDY)

Interpretation, extrapolation and perturbation of single cells

Nature Reviews Genetics - Causal and mechanistic modelling strategies, which aim to infer cause–effect relationships, provide insights into cellular responses to perturbations. The authors...

rdcu.be

How do CRISPR edits actually change cells in real tissues? Most single-cell CRISPR screens infer edits indirectly. We present scPT-seq, a method that directly detects CRISPR mutations and transcriptomes in the same single cells in vivo, from John Hawkins and Siamak Redhai from Boutros Lab. 1/10

We are looking for a Software Developer to work on R/Python interoperability for single-cell and spatial omics methods. 🔗 Apply here: jobs.dkfz.de/en/jobs/1683...

Software Developer - Interoperability for Single-Cell and Spatial Omics Methods

jobs.dkfz.de

We’re excited to announce the "Toward Trustworthy AI Modeling for Computational Healthcare" @elsa-ai.eu workshop, a one-day in-person event focused on building private, fair, robust, reliable, and accountable AI systems for healthcare. Register now. 📅 March 9, 2026 📍 EMBL, Heidelberg, Germany

ELSA – European Lighthouse on Secure and Safe AI@elsa-ai.eu · 8mo ago

Registrations just opened for the workshop “TrustworthyAI4Health: Toward #TrustworthyAI Modeling for Computational #Healthcare”!🔥 Join us on March 9, 2026, to advance private, fair, robust, reliable, and accountable AI models for healthcare applications. elsa-ai.eu/elsa-worksho...

Meet Hendrik Mehrtens who recently joined our lab as a PhD student - shared with @mlolab.bsky.social 👋 Hendrik’s research focuses on reliable machine learning methods integrating large-scale EHR data with multimodal data like genomics data, with a focus on causality and uncertainty estimation.

Claudia Feng's Ph.D work is now out, co-led with @brittavelten.bsky.social and @steglelab.bsky.social . Large-scale CRISPRi perturbations in genetically heterogenous iPSC lines, with single cell readout - enjoy :)

Britta Velten@brittavelten.bsky.social · 8mo ago

Happy to see this out now in Cell Genomics: A genome-scale single-cell CRISPRi map of trans gene regulation across human pluripotent stem cell lines: www.cell.com/cell-genomic...

Back from #scverse25 and feeling inspired by what @scverse.bsky.social has achieved over the last years. Impressive tools, a vibrant community and we even had a reunion with our two alumni Danila and Max Frank. We also presented our latest findings from the lab 👇

The ELLIS Society welcomes its new Board. As the primary decision-making body, it will play a vital role in shaping the future of ELLIS and advancing #AI and #MachineLearning research across Europe in a time of global change. Read the full article: ellis.eu/news/ellis-s...

Welcome to our team, Gesa Voigt! 👋 During her molecular biology studies, Gesa developed an interest in applying mathematics and ML to understand complex biological systems. Her PhD research will focus on inferring GRNs by integrating insights from population genetics and genetic perturbation data.

Please join me in welcoming Stefanie Mantz to our lab! 👋 Steffi joins us as a PhD student after completing her Master’s at Heidelberg University. She will explore gene regulation and cell differentiation using organoid models and is excited to analyze these complex datasets and develop ML methods.

Are you using any of our factor models, such as MOFA? 🛵 You might’ve found it challenging to tailor them to your specific use cases - not anymore! Introducing MOFA-FLEX: a flexible, modular factor analysis framework designed for customizable modeling across diverse multi-omics data scenarios. 1/n