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Currently, the collaboration between the WHO Country Office to Indonesia (WHO Indonesia) with the Government of Indonesia, represented mainly by the Ministry of Health, are covering 5 categories (communicable and noncommunicable diseases, promoting health through the life-course, development of health system particularly on policies, and preparedness, surveillance and response).

The specific focused areas are control of tuberculosis, HIV/AIDS, malaria, vaccine preventable diseases, mental health, injuries prevention, nutrition and prevention of noncommunicable diseases. Other collaboration areas include developing he quality of mother and child care, healthy ageing, food safety, human resources, medicines, health systems information, international health regulations, epidemic, pandemic disease and emergencies response.

On 1st January 2014 Indonesia launched a national health insurance programme called Jaminan Kesehatan Nasional (JKN). With Universal Health Coverage is one focus WHO endorses, WHO Country Office for Indonesia is supporting the country to reach full population coverage by 2019.
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