“…In each case, transcript levels were reduced in the striatum of Htt Q111/+ mice relative to Htt +/+ mice using both RNASeq ( Drd1a : F (1,29) = 103.78, FDR = 1.66 x 10 −12 , Pde10a : F (1,29) = 168.06, FDR = 5.94 x 10 −15 ) and QRT-PCR detection methods ( Drd1a : F (1,53) = 67.97, p = 4.57 x 10 −11 , Pde10a : F (1,53) = 44.47, p = 1.54 x 10 −8 ). To ensure neither our QRT-PCR or RNAseq methods preferentially detected only downregulated genes, we quantified HD-relevant transcripts previously reported as upregulated in the striatum of Htt Q111/+ mice [16]. For instance, we successfully replicated increased steady state levels of Islr2 and N4bp2 in 10-month Htt Q111/+ mice (Fig 5) using both RNAseq ( Islr2 : F (1,29) = 42.84, FDR = 3.45 x 10 −8 and N4bp2 : F (1,29) = 10.96, FDR = 1.67 x 10 −3 ) and QRT-PCR ( Islr2 : F (1,52) = 10.65, p = 1.95 x 10 −3 and N4bp2 : F (1,53) = 7.68, p = 7.68 x 10 −3 ).…”