| JPN-94 | National Center for Global Health and Medicine | Shinjuku-ku | JAPAN | WPRO | WHO Collaborating Centre for Prevention, Preparedness and Response to Emerging Infectious Diseases | MATSUI Tamano | Active | Details |
| JPN-79 | National Institutes for Quantum and Radiological Science and Technology | Chiba-city | JAPAN | WPRO | WHO Collaborating Center for Radiation Emergency Medicine | KENBAYEVA Zhanat | Active | Details |
| JPN-90 | National Institute of Public Health | Wako | JAPAN | WPRO | WHO Collaborating Centre on Tobacco Testing and Research | FAYOKUN Ranti Feyisetan | Active | Details |
| JPN-28 | National Institute of Infectious Diseases | Shinjuku-ku | JAPAN | WPRO | WHO Collaborating Centre for Standardization and Evaluation of Biologicals | SHIN Jinho | Active | Details |
| JPN-67 | Nagasaki University | Nagasaki | JAPAN | WPRO | WHO Collaborating Centre for Reference and Research on Tropical and Emerging Viral Diseases | PHENGXAY Manilay | Active | Details |
| JPN-32 | Radiation Effects Research Foundation (RERF) | Hiroshima | JAPAN | WPRO | WHO Collaborating Centre for Research on Radiation Effects on Human Health | KENBAYEVA Zhanat | Active | Details |
| JPN-93 | National Institute of Infectious Diseases | Tokyo | JAPAN | WPRO | WHO Collaborating Centre for Virus Reference and Research (Enteroviruses) | GRABOVAC Varja | Active | Details |
| JPN-51 | National Institute of Public Health | Wako | JAPAN | WPRO | WHO Collaborating Centre for Community Water Supply and Sanitation | DE FRANCE Jennifer | Active | Details |
| JPN-70 | National Rehabilitation Centre for Persons with Disabilities | Tokorozawa City | JAPAN | WPRO | WHO Collaborating Centre for Disability Prevention and Rehabilitation | MILLS Jody-Anne | Active | Details |
| JPN-95 | Kanazawa University | Kanazawa | JAPAN | WPRO | WHO Collaborating Centre for Chronic Hepatitis and Liver Cancer | IZUMI Kiyohiko | Active | Details |
| JPN-77 | Research Institute of Nursing Care for People and Community | Akashi | JAPAN | WPRO | WHO Collaborating Centre for Disaster Risk Management for Health | LARSEN Jan-Erik | Active | Details |
| JPN-88 | National Institute of Health and Nutrition, National Institutes of Biomedical Innovation, Health and Nutrition | Settsu | JAPAN | WPRO | WHO Collaborating Centre for Nutrition and Physical Activity | UNTORO Juliawati | Active | Details |
| JPN-96 | Fukushima Medical University | Fukushima | JAPAN | WPRO | WHO Collaborating Center for Radiation Disaster Preparedness, Response and Recovery | KENBAYEVA Zhanat | Active | Details |
| JPN-75 | Niigata University Graduate School of Medical and Dental Sciences | Niigata | JAPAN | WPRO | WHO Collaborating Centre for Translation of Oral Health Science | VARENNE Benoit | Active | Details |
| JPN-91 | Hokkaido University | Sapporo | JAPAN | WPRO | WHO Collaborating Centre for Environmental Health and Prevention of Chemical Hazards | EDWARDS Sally | Active | Details |