Table 1.
Differential gene expression in mouse oculomotor nucleus after dark rearing
|
|
|
Fold change (p value) |
||||
|---|---|---|---|---|---|---|
| GenBank no. |
Gene name |
Microarray |
qPCR |
Reference |
||
| Cytoskeleton | ||||||
| D29951 | Kinesin heavy chain 1B (KIF 1B) | 3.4 (0.042) | (Nangaku et al., 1994) | |||
| AF067180 | Kinesin heavy chain 5C (KIF5C) | 2.4 (0.049) | 5.9 (0.024) | (Niclas et al., 1994) | ||
| AB023656 | Kinesin heavy chain 1B-b (KIF 1B-β) | 2.3 (0.042) | 8.0 (0.004) | (Nangaku et al., 1994) | ||
| AF053473 | Kinesin heavy chain 5A (KIF5A) | 2.0 (0.021) | (Niclas et al., 1994) | |||
| Metabolism | ||||||
| AI848335 | NEDD-4 protein | 2.3 (0.011) | 9.8 (0.016) | (Flasza et al., 2002) | ||
| M75135 | Glucose transporter 3 (GLUT3) | 2.1 (0.024) | (Chairi et al., 2002) | |||
| Z13968 | Mitochondrial creatine kinase, ubiquitous | −2.6 (0.025) | (Payne and Strauss, 1994) | |||
| Signal transduction | ||||||
| D87900 | ADP-ribosylation factor 3(ARF3) | 3.3 (0.033) | 1.8 (0.11) | (Irobi et al., 2002) | ||
| D14552 | Nitric oxide synthase 1 (NOS1) | 3.1 (0.03) | (Baxter et al., 2002) | |||
| AF051337 | Cytohesin-1 (PSCD1) | 3.0 (0.025) | (Moss and Vaughan, 2002) | |||
| NM 008087 | Growth arrest-specific 2 (GAS2) | 2.9 (0.022) | 2.2 (0.01) | (Brancolini et al., 1992) | ||
| AF001871 | ADP-ribosylation factor 1 (ARF1) | 2.8 (0.027) | 3.4 (0.043) | (Crottet et al., 2002) | ||
| X90648 | Crkl protein | 2.5 (0.026) | 52 (0.033) | (Lekmine et al., 2002) | ||
| M89802 | Wingless-type MMTV integration site family, member 7b (WNT-7B) | 2.5 (0.019) | (Parr et al., 2001) | |||
| U37017 | VAV2 | 2.4 (0.006) | (Abe et al., 2000) | |||
| AJ223834 | G-protein-coupled receptor 37 (GPR37) | 2.3 (0.041) | (Marazziti et al., 1998) | |||
| AB005663 | c-Jun kinase 1 (JNK1) | 2.3 (0.037) | 9.2 (0.047) | (Kaminska et al., 1999) | ||
| U56243 | 14-3-3 η (brain isoform) | 2.3 (0.046) | 239 (0.027) | (Malaspina et al., 2000) | ||
| AF002701 | GDNF family receptor a2 (GFRA2) | 2.0 (0.04) | (Hashino et al., 2001) | |||
| U89527 | Neuronal CDK5 activator (NCK5A) | 2.0 (0.016) | 2.9 (0.027) | (Chae et al., 1997) | ||
| Synaptic function/excitability | ||||||
| D29743 | Syntaxin 1 (STX1b) | 3.6 (0.013) | 16 (<0.0001) | (Jarvis et al., 2002) | ||
| X51986 | GABA receptor α-6 subunit (GABR-A6) | 3.2 (0.027) | (Brickley et al., 2001) | |||
| U13836 | Vacuolar ATPase subunit Ac116 | 2.9 (0.025) | (Gall et al., 1996) | |||
| X16645 | Na+/K+ ATPase, β-2 subunit (ATP1B2) | 2.9 (0.034) | (Lecuona et al., 1996) | |||
| D10028 | Glutamate receptor channel, subunit ζ-1 (GLURZ1) | 2.7 (0.027) | (Yamazaki et al., 1992) | |||
| U61751 | Synaptobrevin 1 (VAMP1) | 2.5 (0.04) | 4.9 (0.049) | (Bhattacharya et al., 2002) | ||
| AI847972 | Vesicle-associated membrane protein 3 (VAMP3) | 2.3 (0.011) | 4.3 (<0.001) | (Olson et al., 1997) | ||
| D38614 | Presynaptic protein 921-S | 2.2 (0.042) | (Takahashi et al., 1995) | |||
| U60150 | Vesicle-associated membrane protein 1 (VAMP2) | 2.0 (0.04) | (Quetglas et al., 2002) | |||
| Gene transcription/translation | ||||||
| M88299 | Brain-1 class III POU-domain | 3.4 (0.017) | (Hara et al., 1992) | |||
| D63644 | AhR receptor nuclear translocator 2 (ARNT2) | 3.0 (0.043) | (Petersen et al., 2000) | |||
| AF084480 | Williams-Beuren syndrome deletion transcript 9 (WBSCR9) | 2.7 (0.018) | (Horie et al., 1999) | |||
| U49251 | Brain T-box 1 (TBR1) | 2.4 (0.027) | (Bulfone et al., 1995) | |||
| AF015881 | Nuclear factor erythroid-related 1 (NRF1) | 2.4 (0.017) | 6.5 (0.022) | (Prieschl et al., 1998) | ||
| AB013097 | Zinc finger protein 179 (ZNF179) | 2.3 (0.042) | (Orimo et al., 1998) | |||
| U09419 | Retinoid X receptor interacting protein (RIP15) | 2.1 (0.046) | 6.3 (0.002) | (Seol et al., 1995) | ||
| Z47088 | RNA polymerase II, subunit A (POLR2A) | 2.0 (0.047) | (Buratowski, 1994) | |||
| Other/unknown | ||||||
| AB01960 | Caspase 9 (CAS 9) | 2.8 (0.034) | ||||
| AF052506 | RNA-specific adenosine deaminase (ADAR) | 2.6 (0.032) | (Bass, 2002) | |||
| U19582 | Claudin 11 (CLDN11) | −2.0 (0.01) | (Bronstein et al., 2000) | |||
| X58196 | H19 | −2.3 (0.041) | (Poirier et al., 1991) | |||
| AW228162 |
Desmocollin 2
|
−2.4 (0.024) |
|
(Bloor et al., 2002) |
||
Fold change in gene expression relative to oculomotor nuclei from control mice estimated by microarray and qPCR, with p values for all comparisons in parentheses. Genes in bold typeface are related to neuronal plasticity and development. Genes in italics are involved in synaptic function.