Patrick Aloy Calaf

Patrick Aloy Calaf

Institut de Recerca Biomèdica

Life & Medical Sciences

Dr Patrick Aloy is an ICREA Research Professor and Principal Investigator of the Structural Systems Biology lab at the IRB. He has a BSc in Biochemistry and a MSc in Biotechnology from the Univ. Autònoma de Barcelona, Spain, and spent six years as postdoctoral researcher and staff scientist at the European Molecular Biology Laboratory, Heidelberg, Germany. For twenty years, Dr Aloy has been developing and implementing new technologies and algorithms, applying state-of-the-art methods to specific problems and bridging the gap between theoretical models and experiments in different disciplines. In the last years, he has pioneered system-scale analyses of macromolecular assemblies and networks using high-resolution three-dimensional structures, which has become a new discipline in structure prediction. Dr Aloy has over 150 publications in first-rate journals, with over 17,500 citations and remarkable press coverage, illustrating the scientific and social impact of the work.

Research interests

The main goal of his lab is to combine molecular, cell and computational biology to unveil the basic wiring architecture and dynamics of physio-pathological pathways to increase our understanding of how biological systems change from the healthy state to disease. In the last years he has been developing resources to process, harmonize and integrate bioactivity data on small molecules, providing compound bioactivity descriptors that push the similarity principle beyond chemical properties. Currently, the main research line in the lab is to collect heterogeneous datasets and develop novel methodologies to integrate different layers of regulation to unveil disease signatures. Moreover, they are convinced that artificial intelligence (AI) will transform drug discovery, as it is reshaping other areas of science and technology, and biological signatures are the key to guide the (semi) automated design of chemical compounds to globally revert disease states, beyond individual targets.

Selected publications

- Fernandez-Torras A, Locatelli M, Bertoni M & Aloy P 2023, 'BQsupports: systematic assessment of the support and novelty of new biomedical associations', Bioinformatics, 39, 9, btad581.
- Ünlü B, Pons C, Ho UL, Batté A, Aloy P & van Leeuwen J 2023, 'Global analysis of suppressor mutations that rescue human genetic defects', Genome Medicine, 15, 1, 78.
- Lobentanzer S, Aloy P, Baumbach J, et al. 2023, 'Democratizing knowledge representation with BioCypher', Nature Biotechnology, 41, 8, 1056-1059.
- Dan Y, Radic N, Gay M, et al. 2023, 'Characterization of p38α Signaling Networks in Cancer Cells Using Quantitative Proteomics and Phosphoproteomics', Molecular & Cellular Proteomics, 22(4), 100527.
- Kim DK, Weller B, Lin CW, et al. 2023, 'A proteome-scale map of the SARS-CoV-2-human contactome', Nature Biotechnology, 41(1):140-149.

Selected research activities

CRG-SCB Annual Symposium on Proteomics (Organizer). Barcelona, ES. Nov 2023
Karolinska Institutet Seminar Series (Invited Speaker). Stockholm, SE. Sep 2023.
BioMed Conference on Proximity-Inducing Pharmacology (Invited Speaker). Barcelona, ES. May 2023.
Conference on Precision Toxicology (Invited Speaker). Birmingham, UK. April 2023.
Systems Biology: Networks (Invited Speaker). Cold Spring Harbor Laboratory, US. March 2023.