iiinova — where your digital self keeps evolving

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Brian Clarke @brianfclarke.bsky.social · 17/08/2026

1/4 Job alert: Our group is looking for a postdoc for a three-year position in an international collaboration with Marc Jan Bonder and @science-wallet.bsky.social. Recruiting is through the DKFZ International Postdoc Program: www.dkfz.de/en/karriere/... Deadline: September 8

dkfz.de

DKFZ Postdoctoral Fellowships - German Cancer Research Center

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Stegle Lab @steglelab.bsky.social · 11/08/2026

📢 Deadline extended! The application deadline for our MOPITAS Autumn School on Spatial Transcriptomics Data Analysis, taking place October 12-14th in Copenhagen, has been pushed to August 16th. This is a great chance to sharpen your expertise in data science and multi-omics analysis. Register now!

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Stegle Lab @steglelab.bsky.social · 06/08/2026

Did you know that our group at @embl.org is helping to decode the health of tropical forests? Think of it as spatial omics at a whole new scale: satellite imagery meets the DNA and RNA of soil microbes revealing hidden biological patterns in complex ecosystems.

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Stegle Lab @steglelab.bsky.social · 05/08/2026

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.

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Stegle Lab @steglelab.bsky.social · 05/08/2026

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.

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Stegle Lab @steglelab.bsky.social · 06/07/2026

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.

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EMBL @embl.org · 29/06/2026

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

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Helmholtz Metadata Collaboration @helmholtzhmc.bsky.social · 30/04/2026

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.

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Stegle Lab @steglelab.bsky.social · 23/04/2026

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.

An illustration of a pinball machine representing a cell as the ball, with bumpers as causal signatures and flippers as methods guiding understanding through complex molecular terrain.

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Karsten Rippe @karsten-rippe.bsky.social · 20/04/2026

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.

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Stegle Lab @steglelab.bsky.social · 01/04/2026

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!

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Stegle Lab @steglelab.bsky.social · 31/03/2026

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...

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Deutsches Krebsforschungszentrum (DKFZ) @dkfz.bsky.social · 18/03/2026

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

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Stegle Lab @steglelab.bsky.social · 18/03/2026

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.

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Stegle Lab @steglelab.bsky.social · 17/03/2026

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.👇

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Stegle Lab @steglelab.bsky.social · 12/03/2026

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.

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Stegle Lab @steglelab.bsky.social · 12/03/2026

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!

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Helmholtz Metadata Collaboration @helmholtzhmc.bsky.social · 10/02/2026

📢 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

📢 Keynote reveal:
We’re excited to announce Prof. Dr. Oliver Stegle as a keynote speaker at HMC Conference 2026 – Metadata in Action!

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Stegle Lab @steglelab.bsky.social · 10/02/2026

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

doi.org

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Stegle Lab @steglelab.bsky.social · 20/01/2026

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...

health-life-sciences.de

HEALTH + LIFE SCIENCE ALLIANCE | Interinstitutional Postdocs

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Stegle Lab @steglelab.bsky.social · 15/01/2026

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

elsa-ai.eu

ELSA Workshop “TrustworthyAI4Health: Toward Trustworthy AI Modeling for Computational Healthcare” – ELSA

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Stegle Lab @steglelab.bsky.social · 07/01/2026

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)

rdcu.be

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...

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Stegle Lab @steglelab.bsky.social · 27/12/2025

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

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Stegle Lab @steglelab.bsky.social · 27/12/2025

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...

jobs.dkfz.de

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

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Stegle Lab @steglelab.bsky.social · 19/12/2025

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

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Stegle Lab @steglelab.bsky.social · 05/12/2025

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.

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Leopold Parts @leopoldparts.bsky.social · 03/12/2025

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 :)

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Stegle Lab @steglelab.bsky.social · 25/11/2025

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 👇

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ELLIS @ellis.eu · 27/10/2025

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...

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Stegle Lab @steglelab.bsky.social · 12/11/2025

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.

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Stegle Lab @steglelab.bsky.social · 10/11/2025

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.

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Stegle Lab @steglelab.bsky.social · 07/11/2025

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

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EMBL @embl.org · 04/11/2025

Thank you to everyone who joined the Life Science Thematic Workshop at the AI in Science Summit in Copenhagen. Led by EMBL’s Oliver Stegle and Anna Kreshuk, the workshop united researchers and AI experts to explore how advanced computational approaches are shaping the future of life sciences. #ai

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Stegle Lab @steglelab.bsky.social · 14/10/2025

Looking forward to this collab with @moritzmall.bsky.social and Barbara Treutlein! We’ll generate high-throughput multi-modal CRISPR data on ASD risk genes in 🧠 organoids & assembloids, and build an ML model of gene regulation dynamics to analyze the data and enable future in silico experiments.

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Stegle Lab @steglelab.bsky.social · 10/10/2025

Do you want to link genomic variants to functional gene expression - cell by cell? SDR-seq makes it possible; an experimental method connecting coding and non-coding variants to expression in single cells. Proud to have contributed a custom FASTQ-processing tool to this great collaborative project.

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Stegle Lab @steglelab.bsky.social · 10/10/2025

Don’t miss Manu’s poster on DeepGenoXcan, our new personalized and interpretable sequence-to-expression model, at #ASHG2025! 📅 October 16, 2:30pm-4:30pm 📍 Poster 1007T

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Stegle Lab @steglelab.bsky.social · 28/08/2025

Super excited for the 2nd edition of the #scverse conference! A fantastic opportunity to showcase and discover innovative data frameworks for #singlecell analysis, and to meet the developers behind the scverse ecosystem. Looking forward to connecting with the community! Register now! 👇

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Stegle Lab @steglelab.bsky.social · 07/08/2025

A scalable framework enabling the induction and spatial genotyping ➡ phenotyping of hundreds of tumors in mouse liver. #CHOCOLAT-G2P Check out the publication for the nuts and bolts of 🍫-G2P: doi.org/10.1038/s415...

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Stegle Lab @steglelab.bsky.social · 05/08/2025

We're seeking a PhD student passionate about ML, biology, and driving impact in healthcare! You'll be working on multi-omics factorization models for personalized medicine, co-supervised by @junyanlu.bsky.social. 👉 Project: www.helmholtz.de/assets/hidss... ✍️ Apply: hidss4health.de/application

hidss4health.de

Application - Helmholtz Information & Data Science Academy

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EMBL @embl.org · 01/08/2025

🌐 EMBL’s new initiative is set to transform life science research through full AI integration – from genomics to drug discovery. 💡 Funding from the Hector Foundation is dedicated to attracting interdisciplinary talent, boosting infrastructure, training, & innovation. www.embl.org/news/connect...

Caption+Credit: EMBL’s AI Strategy aims to transform life sciences by integrating AI across research areas like genomics, drug discovery, and imaging. Creative team/ EMBL

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Eileen Furlong @eileen-furlong.bsky.social · 30/07/2025

To all post-docs: The Genome Biology dept ‪@embl.org has an Independent faculty position. Fantastic place to set up your lab –great package: core funding, fantastic Ph.D. students, cutting edge core facilities & great colleagues. Closing date Sept 19th embl.wd103.myworkdayjobs.com/en-US/EMBL/j...

embl.wd103.myworkdayjobs.com

Group Leader - Genome Biology Unit

Are you ready to lead groundbreaking research in Genome Biology? Join us at EMBL! We are seeking a motivated scientist to lead an independent research group addressing exciting and original biological...

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Stegle Lab @steglelab.bsky.social · 19/07/2025

This year, our lab has a great representation at the ISMB/ECCB 2025 conference in Liverpool! Every day at the conference, you’ll have the chance to hear at least one talk or explore a poster by one of our incredible lab members. More details below. 👇

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NeurIPS Europe @neuripseurope.bsky.social · 16/07/2025

EurIPS is coming! 📣 Mark your calendar for Dec. 2-7, 2025 in Copenhagen 📅 EurIPS is a community-organized conference where you can present accepted NeurIPS 2025 papers, endorsed by @neuripsconf.bsky.social and @nordicair.bsky.social and is co-developed by @ellis.eu eurips.cc

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Stegle Lab @steglelab.bsky.social · 04/07/2025

📢 Announcing the MOPITAS Autumn School on Spatial Transcriptomics Data Analysis – taking place November 12–14, in Munich. Don't miss this excellent opportunity to deepen your expertise in data science and multi-OMICS analysis - especially as a PhD student in the data science community.

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Stegle Lab @steglelab.bsky.social · 04/07/2025

#ELSAGeneralAssembly Flashback: At last week’s ELSA General Assembly in Brussels, our lab member Hakime represented the @embl.org partnership in the @elsa-ai.eu project. 🧬✨ Hakime shared reflections on the recently concluded Health Privacy Challenge and also organized a follow-up workshop. 🛡️

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Stegle Lab @steglelab.bsky.social · 04/07/2025

Deadline in 9 days - apply now!

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Britta Velten @brittavelten.bsky.social · 25/06/2025

🚀 Job opportunity: Bioinformatics Software Engineer Join a young and passionate team at Heidelberg University to advance bioinformatics software that drive biological discovery. Learn more & apply 👉 shorturl.at/GCpg7

shorturl.at

Bioinformatics Software Engineer

Post a job in 3min, or find thousands of job offers like this one at jobRxiv!

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ELSA – European Lighthouse on Secure and Safe AI @elsa-ai.eu · 17/06/2025

ELSA will be extended!🎉 The European Commission decided to extend the duration of our Lighthouse on Secure and Safe AI. We will now run for an additional 12 months until August 2026. Find more details in the official press release: elsa-ai.eu/official-ext... Congratulations to the network!

ELSA – European Lighthouse on Secure and Safe AI extended until August 2026

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Saez-Rodriguez Group @saezlab.bsky.social · 12/06/2025

🔧 decoupler 2.0.6 is out thanks to @paubadiam.bsky.social‬, now as a core @scverse.bsky.social package scverse.org This release includes a streamlined API aligned with scverse standards, updated vignettes, and a new one on pseudotime enrichment analysis 👇 decoupler.readthedocs.io/en/latest/

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