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Some autoimmune diseases, such as type 1 diabetes and thyroid disease, can affect the body's ability to produce substances it needs to function properly. Therefore, if the body is unable to produce certain hormones, hormone replacement therapy is recommended, during which the person takes the missing synthetic hormones. Diabetes requires insulin injections to regulate blood sugar levels. Synthetic thyroid hormones restore thyroid hormone levels in people with an underactive thyroid gland.

Suppression of the immune system. Some drugs can suppress the activity of the immune system. These drugs can help control the disease process and preserve organ function. For example, these drugs are used to control inflammation in affected kidneys in people with systemic lupus erythematosus in order to keep the kidneys working.

Drugs used to suppress inflammation include chemotherapy, which is used for cancer, but at lower doses, and drugs taken by organ transplant patients to protect against rejection. A class of drugs called anti-TNF drugs block inflammation in some forms of autoimmune arthritis and psoriasis.