Pablo Rodriguez-Mier
Staff in the Saez-Rodriguez group at EMBL-EBI.
I am staff in the Saez-Rodriguez group at EMBL-EBI, where I work on biological network inference. My research focuses on deciphering how complex biological systems behave under different conditions through mechanistic and computational models that integrate prior biological knowledge with experimental data.
Prior to joining EMBL-EBI, I was a postdoctoral researcher in the same group at Heidelberg University (Institute for Computational Biomedicine). Previously, I was a postdoctoral researcher in Computational Systems Biology at INRAE Toxalim (Toulouse, France), developing computational models to understand and predict the metabolic deregulation of cancer cells driven by TP53 mutations.
news
latest posts
| May 30, 2026 | Building a Tiny Convex Optimization Layer from Scratch (Part I) |
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| May 17, 2026 | Making Graphviz easier to use from Python |
| Mar 01, 2020 | Smart Invaders: Can You Beat Them? |
selected publications
- BioRxiv
ScAPE: A lightweight multitask learning baseline method to predict transcriptomic responses to perturbationsbioRxiv, 2025 - Nat. Mach. Intell.
Unifying multi-sample network inference from prior knowledge and omics data with CORNETONature Machine Intelligence, 2025 - Nat. Cell Biol.
LIANA+ provides an all-in-one framework for cell–cell communication inferenceNature Cell Biology, 2024 - Bioinformatics
NetworkCommons: bridging data, knowledge, and methods to build and evaluate context-specific biological networksBioinformatics, 2025 - PLoS Comput. Biol.
DEXOM: Diversity-based enumeration of optimal context-specific metabolic networksPLoS Computational Biology, 2021 - Comput. Biomed.
COVID-19: Estimation of the transmission dynamics in Spain using a stochastic simulator and black-box optimization techniquesComputer Methods and Programs in Biomedicine, 2021