- Advanced Biomedical Engineering Research Unit
- Career-Path Promotion Unit for Young Life Scientists
- Educational Unit for Adaptation and Resilience for a Sustainable Society
- International Research Unit of Integrated Complex System Science (external link)
- Unit of Computational Science (external link)
- Green Innovation Management Education Unit
- Nano Technology Hub (external link)
- Center for Japan-Egypt Cooperation in Education and Research (external link)
- Unit for the Integrated Studies of the Human Mind (external link)
- Education and Research Unit for Regional Alliances (external link)
- Research Unit for Physiological Chemistry (external link)
- Institute of Sustainability Science (external link)
- Resilience Research Unit (external link)
- Unit for Science and Technology in Public Sphere (external link)
- Inter-Graduate School Unit for Sustainable Development and Survivable (external link)
- Educational Unit for Studies on the Connectivity of Hilltop, Human and Ocean (external link)
- Elements Strategy Initiative for Catalysts and Batteries
- Elements Strategy Initiative for Structural Materials (external link)
- Research and Educational Unit of Leaders for Integrated Medical System (LIMS)
- Unit of Design (external link)
- Kyoto University Asian Studies Unit (KUASU) (external link)
- Educational Unit for Human Security Development
- Unit for Advanced Informatics Education and Education Informatization
- Unit of Synergetic Studies for Space (external link)
- Integrated Area Studies Unit (external link)
- Primatology and Wildlife Science Unit