We’re recruiting new Research Group Leaders. We offer:
🔬 World-class IT infrastructure
🧠 Creative freedom for your research
📊 Access to the world’s most comprehensive open biological data
Apply by 11 April embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
#ResearchCareers @johnlees.bacpop.org @embl.org
🧵 What does single-cell transcriptomics reveal about individual patients with acute (AKI) and chronic (CKD) kidney 🫘 disease? Can we use it to find new biomarkers? In our new preprint 👇, we asked this using biopsies from 150+ participants from the Kidney Precision Medicine Project.
We’re recruiting new Research Group Leaders!
Why join?
🌍Work across EMBL’s 6 sites
🎓Participate in @embl.org courses and seminars
🔬Lead discovery-driven research in a collaborative environment
Apply by 11 April: embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
#ResearchCareers @epetsalaki.bsky.social
🧵 See 👇 our new preprint on shared and organ-specific gene expression programs of fibrotic diseases 🧬
📄 Paper: doi.org/10.64898/202...
📊 Explore the data: organfibrosis.saezlab.org
Interested in kinase-driven signaling interactions? Check out our (now peer-reviewed) paper together with @savitski-lab.bsky.social on reconstructing signaling networks from phosphoproteomics data and prior knowledge:
➡️ doi.org/10.1038/s414...
📢 We want your feedback on our new pilot project for sharing AI models in life science research.
Finding, reusing and citing machine learning models remains a major challenge in the life sciences.
BioAIrepo is here to help.
www.ebi.ac.uk/about/news/t...
We’re recruiting new Research Group Leaders!
We offer:
🔬 Core funding
💻 Access to world-leading infrastructure
👩🏽🔬A network of world-leading scientists
…and much more.
Apply by 11 April: embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
#ResearchCareers #Bioinformatics @timcoorens.bsky.social @embl.org
As AI is transforming science, robust benchmarks become essential.
BEACON is a global initiative advancing standards to evaluate AI using transparent benchmarks and #opendata.
#OpenScience #AI #DrugDiscovery @conscience-network.bsky.social @juliosaezrod.bsky.social
conscience.ca/news/introdu...
Join our faculty: ebi.ac.uk/research/gro... - our 9-year tenure nurtures our group leaders to go on to do great things: @virginieuhlmann.bsky.social @oliverstegle.bsky.social @moritzgerstung.bsky.social @teichlab.bsky.social @pedrobeltrao.bsky.social John Marioni
we particularly welcome groups with a focus on (AI) methods, especially young female scientists. We evaluate by potential, not just your current track record. @ebi.embl.org is a great place to start a lab - speaking from experience
Do you want to pursue your ideas in computational biology independently, running your group in @embl.org‘s uniquely collaborative environment, beside world’s most comprehensive biomolecular data resources @ebi.embl.org in Genome Campus next to @sangerinstitute.bsky.social?
Apply to join us & share 🙏
On March 4th, our @ricoramirez.bsky.social will share how we can currently study tissue remodelling with spatial transcriptomics data at a webinar from @training.ebi.embl.org.
This webinar series includes a great lineup of speakers. For free registration see link below ⬇️
Happy to share new work led by @miraburtscher.bsky.social, together with colleagues from @savitski-lab.bsky.social, @saezlab.bsky.social (shout-out to @martingarridorc.bsky.social), @zimmermannlab.bsky.social and others.
Original post + paper below! 👇
Check the talks from @anshulkundaje.bsky.social @juliosaezrod.bsky.social @oldbap.bsky.social @mariabrbic.bsky.social ISMB 2025 special DREAM session on foundation models : youtube.com/playlist?lis...
New preprint from my team! led by @remitrimbour.bsky.social in collaboration with the @saezlab.bsky.social, we developped ReCoN a new method to model multicellular coordination and its underlying molecular mechanisms.
📜 Paper: lnkd.in/eJ8SfFNH
💻 Code: lnkd.in/e-qx2iNp
See 👇 our new manuscript introducing SpaCEy, an explainable method for predicting clinical outcomes from spatial omics data 🧬
📄 Paper: www.biorxiv.org/content/10.6...
💻 Code repo: github.com/saezlab/SpaCEy
AI holds huge promise for life science research. But unreliable answers currently limit its impact.
@juliosaezrod.bsky.social, Head of Research at EMBL-EBI, discusses how Model Context Protocol (MCP) servers are helping to change this.
www.ebi.ac.uk/about/news/p...
🧬💻
NEW: Postdoc with @epetsalaki.bsky.social @juliosaezrod.bsky.social and Tamas Korcsmáros
Benchmark and integrate state-of-the-art network contextualisation methods, combining large-scale transcriptomics, proteomics, and single-cell data
Apply by 17 Dec
embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
📍 Latest OmniPath paper is out now! ➡️ academic.oup.com/nar/advance-...
It was an honor to speak about Systems Biology of Kidney Disease at the American Society of Nephrology meeting www.youtube.com/watch?v=YLVs...
reflecting from my perspective as patient-scientist (www.nature.com/articles/s41...) & sharing work of @saezlab.bsky.social sp. within www.iganatlas.org
📄 BioContextAI is now slightly updated and published @natbiotech.nature.com
➡️ www.nature.com/articles/s41...
Our revised consensus transcriptional patient map of human heart failure across patient cohorts and single-cell and bulk technologies is now published @natcomms.nature.com www.nature.com/articles/s41...
‼️ Deadline extension alert ‼️
The new abstract submission deadline for #EMBLCardioBiology is 10 November 👉 https://s.embl.org/ncb26-01-bl
👉 Join experts pushing the frontiers of heart and vascular science
🫀 Share your work and shape the future of cardiobiology
📜 Submit your abstract today!
Very happy to see this work finally online 🥳
It was really interesting to write a short manuscript mixing method presentation & broader insights on data preprocessing. 📝
Thank you to my co-supervisors @cantinilab.bsky.social & @juliosaezrod.bsky.social for their feedback on this side work! 🫶
5/5
I'm presenting #CIRCE, a Python package to infer co-accessible DNA region networks 🧬
Based on #Cicero 's algorithm (Pliner et al.), it runs ~150x faster, processing an atlas of 700k cells in less than 40 min! ⛷️
Short paper: doi.org/10.1101/2025...
Code: github.com/cantinilab/CIRCE
1/5 ⬇️
We are hiring a Postdoctoral Fellow in Computational Biology at EMBL-EBI (Cambridge, UK). Focus: methods to study cell–cell communication from sc/spatial omics data (building on LIANA+ and NicheNet), in collab with @yvansaeys.bsky.social VIB/Ghent.
Details & apply by 13/10/25: tinyurl.com/4shdw8dk
🥁 Check out our new preprint on OmniPath, the prior knowledge resource for #SystemsBiology, and its brand-new OmniPath Explorer web app! 🥳
📖 Preprint: www.biorxiv.org/content/10.1...
🔍 Explorer: explore.omnipathdb.org
OmniPath integrates 160+ resources for multi-omics analysis & modeling.
🧶⬇️
🚨 New preprint
We present an extended version of ScAPE, the method that won one of the prizes 🏆 in the @neuripsconf.bsky.social 2023 Single-Cell Perturbation Prediction challenge.
📄 preprint: doi.org/10.1101/2025...
🧬 code: github.com/scapeML/scape
Introducing ParTIpy, a python package for Pareto Task Inference that scales to large-scale datasets, including single-cell and spatial transcriptomics.
🔗 Manuscript: www.biorxiv.org/content/10.1...
💻 Code: partipy.readthedocs.io
Meet our newest Research Group Leader: Jess Ewald @ewaldlab.org 🇨🇦
Jess’s group takes a multi-disciplinary approach to identify and characterise chemical hazards to humans and ecosystems, using cell profiling data, machine learning, and integrative data analysis.
www.ebi.ac.uk/about/news/p...
🖥️🧬