Skip to main content

Table 3 Gene ontology enrichment for the caudate nucleus network

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

Module

cor

GO-term (DAVID)

Potential regulators

CNpos1

up

regulation of transcription (6.18, 0.000)

YY1 (0.000)2, ELK1 (0.001)2, GABPB1 (0.002)2, SP1 (0.002)2, NRF1 (0.002)2, E2F (0.007)2, IRF1 (0.011)2, GTF3A (0.032)2, SOX9 (0.033)2

chromatin modification (3.85, 0.003)

mRNA processing (3.71, 0.004)

CNpos2

up

regulation of transcription (5.94, 0.001)

NFAT (0.004)2

cell migration (4.09, 0.004)

lipid metabolism (2.51, 0.001)

CNpos3

up

RNA binding (0.65, 1.0)

 

CNpos4

up

chromatin organization (2.45, 0.008)

EGR2 (0.010)2, MYC (0.040)2, TCF3 (0.040)2, NR2F2 (0.040)2, TCF12 (0.040)2, SP1 (0.040)2, EGR1 (0.040)2, EGR4 (0.040)2

CNpos5

up

cilium (2.79, 0.003)

 

CNpos6

up

inflammatory response (8.33, 0.000)

STAT5A (0.000)2, STAT3 (0.000)2, STAT5B (0.000)2, BACH2 (0.002)2, NFAT (0.005)2, JUN (0.020)2, NFE2 (0.035)2

CNpos7

up

regulation of transcription (3.0, 0.045)

 

CNpos8

up

inflammatory response (14.15, 0.000)

ELF1 (0.000)2, STAT1/STAT2 (0.017)2, IRF1 (0.017)2

icosanoid metabolism (1.73, 0.001)

CNpos9

up

myelination (3.06, 0.002)

 

oligodendrocyte/glial differentiation (2.4, 0.054)

CNneg1

down

synapse (12.23, 0.000)

miR16 (0.018)1, NRF1 (0.03)1

REST (0.000)2, EGR1 (0.000)2, SF1 (0.000)2, CREB1 (0.000)2, JUN (0.000)2, EGR4 (0.000)2, MYOD1 (0.000)2, TCF3 (0.000)2, RORA (0.000)2, ATF1 (0.000)2, E4F1 (0.000)2, SP1 (0.000)2, ESRRA (0.001)2, TCF11 (0.002)2, PAX4 (0.002)2, TFAP4 (0.003)2, MAZ (0.003)2, HAND1 (0.006)2, EGR2 (0.007)2, NRF2 (0.007)2, ATF3 (0.008)2, RFX1 (0.008)2, POU3F1 (0.008)2, LEF1 (0.011)2, POU1F1 (0.019)2, MYB (0.027)2, TCF12 (0.041)2, NFE2 (0.041)2, MEIS1 (0.044)2, SREBF1 (0.050)2

ion channels (4.61, 0.000)

regulation of synaptic plasticity (4.58, 0.000)

protein transport (2.89, 0.011)

protein targeting to mitochondrion (2.75, 0.007)

CNneg2

down

mitochondrion (20.31, 0.000)

YY1 (0.005)1, ETS1 (0.005)1, NRF1 (0.005)1

ELK1 (0.000)2

proteasome/protein catabolic process (5.83, 0.000)

mitochondrial ribosome (4.54, 0.000)

chaperones (3.17, 0.012)

spliceosome (3.0, 0.002)

DNA repair (2.47, 0.027)

translation initiation (1.95, 0.007)

CNneg3

down

hemoglobin complex (1.74, 0.024)

 

HTT

down

neuron projection (1.93, 0.56)

 
  1. Gene ontology (GO) enrichment for the caudate nucleus network. Genes in the identified modules were analyzed using DAVID. The sign of the correlation (cor) with HD 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. Regulators that were identified by both tools are highlighted in bold. HTT is part of the CNneg1 module in the caudate nucleus network. The GO-term enrichment for 100 genes with the highest correlation with HTT is shown.
Back to article page

BMC Medical Genomics

ISSN: 1755-8794

Contact us