The Northern Territory Health Department says patients with sexually-transmitted diseases will not be affected by the suspension of a database which tracks disease notification and treatment.
Central Australia has the highest rate of sexually transmitted diseases in the nation.
For the past decade, a database has been operating in Alice Springs to coordinate a health response to the STI issue.
The Central Follow-Up database tracks disease testing and treatment.
That is about to end.
From the new year, the database will be temporarily suspended and the Territory Centre for Disease Control says it could be permanently phased out.
But it insists cutting the system won't affect patient care.
The centre says a Territory-wide system that supersedes the database has been installed.
It also says there are health workers on the ground delivering the necessary treatment.