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Alberto Santos’s indexed work centers on integrating proteomics data with clinical knowledge to enable data-driven decision-making. As first author, he developed a knowledge graph to interpret clinical proteomics data (2022, *Nature Biotechnology*, 297 citations), creating a framework that bridges molecular profiling and patient stratification. He also led the creation of Cyclebase 3.0, a multi-organism database on cell-cycle regulation and phenotypes (2014, *Nucleic Acids Research*, 266 citations), and conducted a comprehensive comparison of large-scale tissue expression datasets (2015, *PeerJ*, 97 citations), establishing benchmarks for cross-study reproducibility. Beyond his lead-author contributions, Santos contributed to several high-impact consortium efforts, including the STRING database for protein–protein interaction networks (2014, *Nucleic Acids Research*, over 11,000 citations) and the IntOGen platform for identifying cancer drivers across tumor types (2013, *Nature Methods*, 633 citations). His more recent senior-author work explores adversarial generative models for metagenomic data integration (ABaCo, 2026) and automated scientific report generation (VueGen, 2025). Across these projects, Santos consistently advances methods for integrating heterogeneous biological data—from cell-cycle databases to clinical proteomics—into actionable, interpretable resources.
Damian Szklarczyk, Andrea Franceschini, Stefan Wyder, Kristoffer Forslund, Davide Heller, Jaime Huerta-Cepas, Milan Simonovic, Alexander Roth, Alberto Santos, Kalliopi P Tsafou, Michael Kuhn, Peer Bork, Lars J Jensen, Christian von Mering
Damian Szklarczyk, John H Morris
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Damian Szklarczyk, Alberto Santos, Christian von Mering, Lars Juhl Jensen, Peer Bork, Michael Kuhn
Abel Gonzalez-Perez, Christian Perez-Llamas, Jordi Deu-Pons, David Tamborero, Michael P Schroeder, Alba Jene-Sanz, Alberto Santos, Nuria Lopez-Bigas
Andreas Mund, Fabian Coscia, András Kriston, Réka Hollandi, Ferenc Kovács, Andreas-David Brunner, Ede Migh, Lisa Schweizer, Alberto Santos, Michael Bzorek, Soraya Naimy, Lise Mette Rahbek-Gjerdrum, Beatrice Dyring-Andersen, Jutta Bulkescher, Claudia Lukas, Mark Adam Eckert, Ernst Lengyel, Christian Gnann, Emma Lundberg, Peter Horvath, Matthias Mann