Table 1.

Selected gene ontology (GO) annotation of downregulated genes in SCA-3 transgenic mice. GO annotations were performed when the BH-adjusted p-values were lower than 0.05 and the q-values were lower than 0.2 in the hypergeometric tests. Fold changes were calculated by determining the ratio of the average normalized expression values between samples. The complete GO term list is in Table S1.

GO Term	Description	adj p-Value	Number of Genes
	Cellular component
GO:0062023	collagen-containing extracellular matrix	2.41 × 10−11	31
GO:0016324	apical plasma membrane	1.34 × 10−6	22
GO:0005882	intermediate filament	7.64 × 10−7	14
GO:0031526	brush border membrane	1.34 × 10−6	11
GO:0045095	keratin filament	4.30 × 10−8	10
	Biological process
GO:0006631	fatty acid metabolic process	2.81 × 10−9	29
GO:0042060	wound healing	2.81 × 10−9	27
GO:0008202	steroid metabolic process	4.43 × 10−7	22
GO:0043062	extracellular structure organization	1.09 × 10−6	21
GO:0006805	xenobiotic metabolic process	1.45 × 10−12	19
GO:0050817	coagulation	3.88 × 10−6	15
GO:0042737	drug catabolic process	1.09 × 10−6	10
GO:0045109	intermediate filament organization	4.18 × 10−9	10
GO:0019369	arachidonic acid metabolic process	3.62 × 10−4	8
	Molecular function
GO:0005539	glycosaminoglycan binding	1.15 × 10−6	18
GO:0005201	extracellular matrix structural constituent	8.00 × 10−8	17
GO:0031406	carboxylic acid binding	7.20 × 10−6	17
GO:0008201	heparin binding	8.03 × 10−6	14
GO:0008395	steroid hydroxylase activity	1.85 × 10−6	11
GO:0016712	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen	5.75 × 10−7	11
GO:0016725	oxidoreductase activity, acting on CH or CH2 groups	6.20 × 10−5	5