Saez-Rodriguez Group

The scientific community is buzzing on Bluesky 🦋 You can now also follow us there: saezlab.bsky.social

We gratefully acknowledge funding from the @dfg_public , the @CZ_Stiftung , and the @mwk__bw

This work was led by @psl_schaefer with support from Leoni Zimmermann, P. Leo Burmedi, @tanevski , Miri Adler and her team (Avia Walfisch, Noa Goldenberg, Shira Yonassi, Einat Shaer Tamar). @JulioSaezRod and @roramirezf94 supervised the work.

🧵ParTIpy, our Python package for Pareto Task Inference just got published in Molecular Systems Biology (Peer reviewed at Review Commons) 🔗 Manuscript: link.springer.com/article/10.103… 💻 Code: github.com/saezlab/partipy 📚 Docs: partipy.readthedocs.io/en/latest/

Led by Bi-rong Wang, cosupervised w/ @FEduati 's group & @DugourdAjf from @saezlab group. 🧪

FICUS bundles COSMOS + CellNOpt into one modular, data-driven workflow for patient stratification & mechanistic hypothesis generation in precision oncology. 📦 R package: github.com/saezlab/ficus

🧵 New preprint: Logic models can simulate cancer signalling & screen drug targets in silico, but they need perturbation data & hand-curated networks patients lack. We present FICUS for building dynamic logic models directly from patient omics. 📄 doi.org/10.64898/2026.…

Our alumna Sophia Müller-Dott was honored with the MTZ Award for Systems Medicine for her PhD work. Congratulations, @sophia_mullerd ! 🎉 A special thanks to Monika and Thomas Zimmermann from the @MTZfoundation for their enduring support of Systems Medicine. 🙌

Led by José Linares Blanco, supervision from @JulioSaezRod and @roramirezf94, contributions from @psl_schaefer, Leoni Zimmermann, Ricardo Melo Ferreira, Daniel Toro Dominguez, @pcarmonasaez, @tanevski, Marta E. Alarcon Riquelme and Michael T. Eadon.

Together, this links systemic immune programs measured in blood to local tissue pathology in lupus nephritis. We see our patient map as a reference where SLE or other autoimmune cohorts can be analyzed. GitHub: github.com/saezlab/metalu…

1/🧵New preprint! We built a patient-level map of systemic lupus erythematosus using single-cell blood transcriptomics, linking multicellular immune coordination to patient heterogeneity, future disease activity, and potential tissue pathology. ➡️ doi.org/10.64898/2026.…