Many non-governmental organizations collect statistics on particular health conditions. Check relevant association websites for statistics on your topic.
The Canadian Community Health Survey (CCHS) is frequently used in health research. The video below describes what is included, and how to use the PUMF (public use microdata file).
The Statistics Canada's Real Time Remote Access (RTRA) program allows authorized users to run SAS programs against selected Statistics Canada microdata. See the Statistics Canada website for more information on the program and the complete list of surveys and metadata.
The video below provides more detail on the RTRA program, as well as describing alternative data sources to the microdata available in Research Data Centres. The health-focused content begins around 40:00.