Supplementary Table 11. 3-NP-specific gene sets (Group 5)
Significantly enriched gene sets in HD CAG and 3-NP comparison were identified by gene set
analysis (sigPathway). 114 and 196 gene sets were significantly enriched in HD CAG and 3-NP
model, respectively (q<0.01). Among 266 significant gene sets, 117 gene sets were 3-NPspecific (HD CAG, q0.05 and 3-NP, q<0.01). Size, number of probes in the gene set. NTk,
normalized gene set score obtained by gene set permutation.
NTk
HD CAG 3-NP
Group 5. 3-NP-specific Gene Set
Size
Cellular metabolism
Alanine and aspartate metabolism
Amine biosynthesis
Amino acid and derivative metabolism
Amino acid biosynthesis
Amino acid metabolism
Amino sugar metabolism
Aminosugars metabolism
Arginine and proline metabolism
Butanoate metabolism
C-acyltransferase activity
Fatty acid metabolism
Glucosamine metabolism
Glutamate metabolism
Glutamine family amino acid metabolism
N-acetylglucosamine metabolism
NADP metabolism
Nicotinamide metabolism
Nitrogen compound biosynthesis
Nucleobase metabolism
One carbon pool by folate
Oxidoreduction coenzyme metabolism
Pyridine nucleotide metabolism
S-adenosylmethionine-dependent methyltransferase activity
Urea cycle and metabolism of amino groups
45
104
450
72
351
48
69
71
103
24
262
35
55
36
35
20
33
104
29
40
44
40
162
37
-1.0
2.3
0.5
2.0
0.6
-0.9
-1.4
-2.0
2.1
1.0
2.1
-1.3
-1.0
-1.0
-1.3
2.2
2.0
2.3
-1.3
-0.2
2.2
1.9
-0.5
-1.8
-5.5
-5.2
-4.7
-5.3
-5.6
-3.4
-3.3
-3.5
3.2
3.3
4.7
-3.5
-3.5
-3.1
-3.5
5.8
3.4
-5.2
-3.3
-3.5
3.2
3.3
-3.7
-3.7
Cell cycle
BTG family proteins and cell cycle regulation
Chromosome segregation
Influence of Ras and Rho proteins on G1 to S Transition
Interphase
Interphase of mitotic cell cycle
M phase
M phase of meiotic cell cycle
29
74
71
138
138
336
90
-0.9
1.5
-0.9
-0.6
-0.6
0.0
0.6
-3.3
5.9
-4.1
-3.2
-3.2
5.4
3.8
M phase of mitotic cell cycle
Meiosis
Meiotic cell cycle
Mitosis
Polyamine metabolism
262
90
90
261
32
0.0
0.6
0.6
0.1
0.0
4.2
3.8
3.8
4.5
-3.1
Structure molecule / Adhesion
Actin cytoskeleton
Adhesion Molecules on Lymphocyte
Cell-matrix adhesion
Extracellular Matrix Adhesion Molecules
Focal adhesion
Microtubule
458
22
130
218
61
362
0.8
2.0
0.9
0.2
2.4
1.5
-3.4
-3.4
-3.1
-5.1
-3.5
3.2
55
225
244
313
135
139
260
428
206
51
253
20
-2.4
-1.0
0.5
-2.1
-1.5
2.4
-0.1
1.5
-0.6
2.4
-1.4
0.5
-3.8
-4.7
-3.4
-3.1
-6.0
-3.3
-3.4
4.1
-4.1
-6.0
-5.1
-3.2
452
202
166
73
104
498
193
1.3
-0.3
-1.8
-1.7
1.4
-0.8
-0.6
3.8
-4.1
-3.9
-3.7
-4.0
-3.3
-6.7
369
480
60
349
349
349
-0.2
-0.3
0.4
-0.7
-0.7
-0.7
5.4
4.4
3.1
5.1
5.1
5.1
70
70
-0.8
-0.8
-5.5
-5.5
Signaling
ATM Signaling Pathway
Breast Cancer Estrogen Receptor Signaling
Ca NFAT Signaling Pathways
GTPase activator activity
HIV-I Nef negative effector of Fas and TNF
Kinase regulator activity
MAP Kinase Signaling Pathway
Neuroactive ligand-receptor interaction
NFkB Signaling Pathway
P53 Signaling Pathway
P53 Signaling Pathway
Regulation of MAP Kinase Pathways Through Dual Specificity
Phosphatases
Rhodopsin-like receptor activity
Signal Transduction in Cancer
Signal Transduction PathwayFinder
Signal transduction through IL1R
Signaling of Hepatocyte Growth Factor Receptor
Small GTPase mediated signal transduction
Stress Toxicity PathwayFinder
RNA metabolism
RNA splicing
mRNA processing
mRNA splice site selection
Nuclear mRNA splicing, via spliceosome
RNA splicing, via transesterification reactions
RNA splicing, via transesterification reactions with bulged
adenosine as nucleophile
rRNA metabolism
rRNA processing
tRNA metabolism
RNA ligase activity
RNA modification
138
102
98
0.9
1.8
2.3
-6.3
-6.1
-6.4
213
397
43
1.7
-1.8
-1.1
-3.4
-3.5
-3.9
231
102
102
113
171
148
-0.5
1.8
1.8
1.6
0.0
2.4
3.3
-6.1
-6.1
-5.9
6.4
9.9
35
0.3
6.4
26
2.2
5.4
23
-0.3
-3.2
Translation / tRNA
Aminoacyl-tRNA synthetases
Translational initiation
Translation factor activity, nucleic acid binding
tRNA ligase activity
tRNA modification
translation regulator activity
tRNA aminoacylation for protein translation
tRNA aminoacylation
Translation initiation factor activity
Translation
40
109
250
102
86
259
80
80
165
303
1.4
-1.5
-1.8
1.8
1.9
-1.9
2.0
2.0
-2.3
-0.5
-6.7
-5.1
-4.9
-6.1
-6.6
-4.8
-6.2
-6.2
-5.4
-6.2
Others
Agrin in Postsynaptic Differentiation
Amino acid activation
Aangiogenesis
Cancer PathwayFinder
Cardiovascular Disease
Chromosome, pericentric region
Inner membrane
96
80
192
235
309
89
291
-0.5
2.0
2.3
1.0
0.3
-0.7
-0.6
-3.3
-6.2
-3.9
-6.7
-4.7
3.7
-3.1
Enzyme activity
Cancer Drug Resistance Metabolism
Enzyme activator activity
Hydrolase activity, acting on carbon-nitrogen (but not peptide)
bonds, in cyclic amidines
Isomerase activity
Ligase activity, forming aminoacyl-tRNA and related compounds
Ligase activity, forming carbon-oxygen bonds
Ligase activity, forming phosphoric ester bonds
Monooxygenase activity
Oxidoreductase activity, acting on paired donors, with
incorporation or reduction of molecular oxygen
Oxidoreductase activity, acting on paired donors, with
incorporation or reduction of molecular oxygen, 2-oxoglutarate as
one donor, and incorporation of one atom each of oxygen into both
donors
Oxidoreductase activity, acting on paired donors, with
incorporation or reduction of molecular oxygen, NAD or NADH
as one donor, and incorporation of one atom of oxygen
Oxidoreductase activity, acting on the CH-NH group of donors,
NAD or NADP as acceptor
Integrin binding
Iron ion binding
Kinetochore
L-ascorbic acid binding
Late endosome
Monocyte and its Surface Molecules
Nucleolus
Protein targeting
Protein transporter activity
Regulation of gene expression, epigenetic
Sex differentiation
Small ribosomal subunit
Transcriptional activator activity
Tumor Metastasis
Tumor Suppressor Arf Inhibits Ribosomal Biogenesis
uCalpain and friends in Cell spread
30
419
47
25
51
26
185
482
326
107
103
89
163
220
31
39
-1.5
2.0
0.7
-1.0
1.1
1.9
-0.8
-0.7
-1.9
0.8
0.1
-2.1
-2.4
1.3
-0.8
-0.2
-3.6
5.7
3.3
6.1
-4.7
-3.3
-5.6
-3.2
-4.0
3.3
3.2
-3.2
-4.2
-7.5
-3.3
-3.3