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Table 4 Gene ontology enrichment for conserved genes between HD networks

From: A common gene expression signature in Huntington’s disease patient brain regions

Overlap GO-term (DAVID) Potential regulators
Positively correlated genes
CN and FC-BA4 inflammatory response (5.6, 0.001) MYC/MAX (0.010)2, STAT3 (0.010)2, ETS2 (0.020)2
epithelial to mesenchymal transition (1.18, 0.026)
CN and CB regulation of transcription (5.2, 0.000)  
mRNA processing (3.69, 0.001)
apical junction complex (1.91, 0.027)
FC-BA4 and CB zinc-finger (1.17, 0.44)  
all three networks metallothionein (5.1, 0.000) FOXF2 (0.002)2, NFIL3 (0.010)2, LEF1 (0.017)2, HSF1 (0.017)2, ATF2 (0.022)2, HIF1A (0.026)2, SP1 (0.042)2
stress response/chaperones (2.62, 0.02)
angiogenesis (2.61, 0.039)
Negatively correlated genes
CN and FC-BA4 synaptic transmission (4.8, 0.000) REST (0.004)2, EGR4 (0.015)2, SP1 (0.015)2, ATF1 (0.022)2, MEIS1 (0.022)2, ELK1 (0.022)2, ESRRA (0.040)2, ATF3 (0.046)2, E4F (0.046)2, SF1 (0.046)2, LEF1 (0.046)2
ion channels (4.65, 0.000)
protein catabolic process (4.23, 0.008)
CN and CB mitochondrion (8.46, 0.000) SF1 (0.002)2, E4F (0.020)2
intracellular protein transport (3.02, 0.023)
vesicle mediated transport (2.19, 0.013)
FC-BA4 and CB coenzyme metabolic process (1.86, 0.98) ELK1 (0.007)2, E4F (0.007)2
all three networks mitochondrion (6.01, 0.000) CREB (0.000)2, ATF3 (0.001)2, SF1 (0.015)2, ERR1 (0.015)2, TCF11 (0.015)2, ELK1 (0.018)2, ATF4 (0.018)2, SREBF1 (0.018)2, ATF6 (0.019)2, E4F (0.024)2, JUN (0.026)2, EGR1 (0.039)2, NRF1 (0.049)2
glycolysis (2.74, 0.003)
intracellular protein transport (2.59, 0.028)
proteasome (1.97, 0.001)
synaptic vesicle (1.82, 0.018)
  1. Gene ontology (GO) enrichment for conserved genes between HD networks. Genes were analyzed using DAVID and the over-represented GO-terms are shown. The first number in brackets after the GO-term is the respective fold enrichment, the second number the adjusted P-value, as determined by DAVID. All significantly enriched (adjusted P <0.05) GO-terms are shown. In cases where no significantly enriched GO-term was identified, the GO-term with the highest fold enrichment is shown. Potential regulators of a module were identified using 1GO-Elite, or 2WebGestalt. Adjusted P-values are given in brackets after the name.