We found that neurological diseases were significantly enriched among genes associated with LINE-1 and Alu methylation signatures in the heterogeneous ASD (p range: 0.00495–3.33E-26, 2274 genes) and ASD with CHD8 variants (p range: 0.0258–0.000117, 302 genes) as shown in Supplementary Tables S1 and S2. The gene discussed is CHD8; the disease is nervous system disorder.