We applied the hypergeometric test and observed that 68.7% (382/556, P = 1.5 × 10−189) of the TDP-43 KD downregulated transcripts overlapped with HD downregulated transcripts, and 46.3% (183/395, P = 7.5 × 10−93) overlapped with the HD upregulated genes (Fig. 3f and Supplementary Data 8). Here, TARDBP is linked to Huntington disease.