In particular, sgScd2-unique IRF9 bound genes, including Herc6, Oas2, Xaf1, were deeply related to autoimmunity and suppressed by the genetic deletion of Irf9. Since the deletion of Scd2 activates the cGAS-STIING axis for IRF3-mediated type I-IFN production and consequently stimulates IRF9-mediated ISG transcription, our findings could be useful to interpret the disease progression and treatment of autoimmune disease. Here, IRF9 is linked to autoimmune disease.