Therefore, we speculated that BB365896, Calcoco1, Smarca2, Cln3, Tacc1, and Gm38366 might be involved in the progression of NAFLD by regulating the Ras signaling pathway, aldosterone synthesis and secretion, AGE–RAGE signaling pathway in diabetic complications, cGMP–PKG signaling pathway, sphingolipid signaling pathway, inflammatory mediator regulation of TRP channels, insulin resistance, TNF signaling pathway, cAMP signaling pathway, adipocytokine signaling pathway, metabolic pathways, mTOR signaling pathway, and glycerolipid metabolism. The gene discussed is CLN3; the disease is metabolic dysfunction-associated steatotic liver disease.