Systemic Lupus Erythematosus (SLE) is a chronic, multi-system autoimmune disorder that impacts 43.7 individuals per 100,000 people in the United States alone, with a higher prevalence of 78.83 cases per 100,000 in women. The exact pathogenesis and cause of SLE is poorly understood. Epstein-Barr Virus (EBV)-induced dysregulation of immune responses is one proposed mechanism for SLE pathogenesis. EBV encodes >44 viral microRNAs, which have been shown to manipulate several biological processes including immune responses. Data on which EBV miRNAs, if any, are upregulated in SLE patients can give mechanistic insight into the genes involved in SLE and how EBV contributes to the development of this disease. We performed secondary analysis on publicly-available SLE sequencing dataset for human and viral miRNAs, then expanded the analysis to include other autoimmune disorders.