- Department of Experimental Computer Physics
head: dr hab. Grzegorz Zuzel, prof. UJ - Department of Hot Matter Physics
head: dr hab. Paweł Staszel, prof. UJ - Department of Medical Physics
head: prof. UJ Ewa Stępień - Department of Physics of Nanostructures and Nanotechnology
head: prof. Zbigniew Postawa - Department of Photonics
head: prof. Jarosław Koperski - Department of Synchrotron Radiation (in polish)
head: prof. Jacek Kołodziej - Cluster of Nuclear Physics Departments
- Department of Experimental Particle Physics and its Applications
head: prof. Paweł Moskal - Department of Hadron Physics
head: prof. Piotr Salabura - Department of Theory of Nuclear Systems
head: prof. Jacek Golak - Cluster of Departments of Advanced Materials Physics and Molecular Biophysics
- Department of Molecular and Interfacial Biophysics
head: prof. Andrzej Budkowski - Department of Solid Stale Physics
head: prof. Franciszek Krok - Department of Advanced Materials Engineering
acting head: dr hab. Michał Rams, prof. UJ