Table 1.
ChIP-on-chip analyses on the human HD cortex
| Gene name | Protein name | Ontology | HD/NORM |
|---|---|---|---|
| SNN | Stannin | Signaling | 3.1 |
| OAT | Ornithine aminotransferase mitochondrial precursor | Metabolism | 2.5 |
| NPC2 | Epididymal secretory protein E1 precursor | Unknown | 2.3 |
| PCSK1 | Neuroendocrine convertase 1 precursor | Signaling | 2.2 |
| SLC13A1 | Solute carrier family 13, member 1 | Transport | 2.1 |
| CNTNAP | Contactin-associated protein-like 2 precursor | Structure | 2.0 |
| CACNA1H | Voltage-dependent T-type calcium channel subunit alpha-1H | Signaling | 2.0 |
| CREB3L3 | CREB/ATF family transcription factor | Transcription | 1.9 |
| GRIK3 | Glutamate receptor, ionotropic kainate 3 precursor | Signaling | 1.9 |
| FAM105A | Unknown | Unknown | 1.9 |
| CMKLR1 | Chemokine receptor-like 1 | Immune response, development, signaling | 1.9 |
| FUT9 | α-(1,3)-Fucosyltransferase | Metabolism | 1.8 |
| OSBP2 | Oxysterol-binding protein 2 | Metabolism | 1.7 |
| LRRTM4 | Leucine rich repeat transmembrane neuronal 4 | Protein binding | 1.7 |
| ARRDC3 | Arrestin domain-containing protein 3 | Unknown | 1.7 |
| EPHA10 | Ephrin type-A receptor 10 precursor | Signaling | 1.7 |
| VIP | Vasoactive intestinal peptide | Signaling | 1.7 |
| ENSG00000110427 | G2 protein | Unknown | 1.6 |
| TRPC7 | Short transient receptor potential channel 7 | Signaling | 1.6 |
| PHKB | Phosphorylase b kinase regulatory subunit beta | Metabolism, signaling | 1.6 |
| HNRPUL1 | Heterogeneous nuclear ribonucleoprotein U-like protein 1 | Transcription, RNA processing | 1.6 |
| NELL1 | Protein kinase C-binding protein NELL1 precursor | Structure, neurogenesis, metabolism | 1.5 |
| CBLN1 | Cerebellin-like glycoprotein 1 precursor | Structure | 1.5 |
| B3GAT1 | Galactosylgalactosylxylosyl protein 3-beta-glucuronosyltransferase 1 | Metabolism | 1.5 |
| DDX25 | ATP-dependent RNA helicase DDX25 | Spermatogenesis, RNA helicase | 1.5 |
| SYT4 | Synaptotagmin-4 | Synaptic activity | 1.5 |
| LHX5 | LIM/homeobox protein Lhx5 | Transcription, neuronal development | 1.5 |
| NCAM2 | Neural cell adhesion molecule 2 precursor | Neuronal development, adhesion | 1.4 |
| XKR4 | XK-related protein 4 | Unknown | 1.4 |
| TCBA1 | T-cell lymphoma breakpoint associated target protein 1 | Unknown | 1.4 |
| USP31 | Ubiquitin-specific proteinase 31, putative | Metabolism | 1.4 |
| FGF14 | Fibroblast growth factor 14 | Neuronal development, signaling | 1.3 |
| KCNJ6 | G-protein-activated inward rectifier potassium channel 2 | Signaling | 1.3 |
| SLC7A14 | Solute carrier family 7 (cationic amino acid transporter, y + system), member 14 | Amino acid transport | 1.3 |
| KCNAB2 | Voltage-gated potassium channel subunit beta-2 | Transport, signaling | 1.3 |
| FGF12 | Fibroblast growth factor 12 | Neuronal development, signaling | 1.3 |
| BDNF | Brain-derived neurotrophic factor (BDNF) | Growth factor, neurodevelopment | 1.3 |
| TSPAN14 | Tetraspanin-14 | Unknown | 1.3 |
| GENSCAN00000062697 | Presynaptic cytomatrix protein Piccolo homolog | Synaptic transmission | 1.3 |
| POU4F1 | POU domain, class 4, transcription factor 1 | Neuronal development, transcription | 1.3 |
| EFNA5 | Ephrin-A5 precursor | Neuronal development, signaling | 1.3 |
| SYN1 | Synapsin I | Synaptic transmission | 1.2 |
| HPGD1 | 15-Hydroxyprostaglandin dehydrogenase [NAD+] | Metabolism | 1.2 |
Relative REST/NRSF enrichments were averaged from three independent HD patient samples (3932, 2866, 5570) and two independent control patient (non-HD) samples (5919, 6002). Values indicated as HD/NORM mean relative enrichment seen in HD tissue when normalized to control tissue. Forty-three RE1/NRSE containing genes are enriched in the HD cortex versus control (corresponding to a 95% confidence interval, p < 0.05). RE1/NRSE location and gene ontology information were extracted from Ensembl (http://www.ensembl.org), UniProt (http://www.expasy.uniprot.org), and the RE1/NRSE database (Bruce et al., 2004). CREB, cAMP response element-binding protein; ATF, activating transcription factor.