We validated the TF–mRNA–miRNA co-expression network using an independent dataset and identified several key regulatory axes that may play important roles in inflammation-mediated pathogenesis of PD: GATA1-SLC18A2-hsa-miR-3671, EP300-SLC18A2-hsa-miR-3671, EP300-SLC18A2-hsa-miR-589-5P, GATA1-SLC18A2-hsa-miR-589-5P, and REST-TAC1-hsa-miR-330-3P.GATA1 functions as a transcriptional regulator in the central nervous system and is capable of activating immune responses that lead to neuroinflammation. Here, REST is linked to Parkinson disease.