Thus, L2–3_Cux2 and L5–6_Fezf2 subtypes co-clustered with Sst_Tac1 and Vip_Cbln1 subtypes, whereas L3_Cux2_Prss12 co-clustered with Pvalb_Sulf1, which might underlie local neuronal networks with most strongly affected in the epilepsy transcriptome. Here, CUX2 is linked to epilepsy.