Diabetes CCRE - Based at the University of Melbourne, the Diabetes CCRE seeks to encourage and promote clinical research in diabetes and its complications, with the ultimate goal of improving the treatment and prevention of this disease.

The Gait CCRE - The Gait CCRE, based at the Murdoch Childrens Research Institute, draws together researchers, academics and clinicians from a range of institutions across Melbourne, to conduct research and research training in clinical gait analysis and rehabilitation, to ensure the appropriate translation of research findings into clinical practice.

Immunisation CCRE - The Immunisation CCRE, based at the Murdoch Childrens Research Institute, has three main programs of research: Special Risk Program, Rotavirus Vaccine Program, and the Indigenous Immunisation Program.

CCRE for Translational Clinical Research in Major Eye Diseases (new in 2009) - This CCRE will fund a world-leading, broad-based, clinical and translational research program in Melbourne and Sydney to tackle the four eye diseases that cause the majority of vision loss in Australia: age-related macular degeneration, diabetic retinopathy, cataract and glaucoma eye diseases. The CCRE will be headquartered at the Centre for Eye Research Australia in Victoria.

CCRE in Newborn Medicine (new in 2009) - Based at the Murdoch Childrens Research Institute, the CCRE in Newborn Medicine will study adverse outcomes for the brains and lungs of newborn babies.