Table 1. Genes differentially expressed between adult mouse hypothalamus and neocortex and validated by using qRT-PCR.
| RefSeq ID code | Tag-to-gene match (Mus musculus) | SAGE tag | Hypothalamus/100,000 tags (SAGE) | Neocortex/100,000 tags (SAGE) | Neocortex fold-enrichment (SAGE) | P value (SAGE) | Neocortex fold-enrichment (qRT-PCR), corrected | P value (qRT-PCR) |
|---|---|---|---|---|---|---|---|---|
| NM_009366 | Transforming growth factor β-1-induced transcript 4 (TGF-βi4) | TCCCCCACAC | 0 | 34 | Neocortex-specific | 0.00 | 1.41 | <0.001 |
| NM_144828 | Protein phosphatase 1, regulatory (inhibitor) subunit 1B (Ppplrlb) | TCCCTCCCTT | 0 | 24 | Neocortex-specific | 0.00 | −1.41 | 0.300 NS |
| NM_008451 | Kinesin light-chain 2 (Klc2) | GCCTGACCCC | 0 | 16 | Neocortex-specific | 0.04 | 1.31 | 0.013 |
| NM_016801 | Syntaxin 1A (brain) (Stx1a) | CAGCGGGAGC | 1 | 30 | 30.00 | 0.00 | 5.01 | <0.001 |
| NM_144900 | ATPase, Na+/K+ transporting, α-1 polypeptide (Atp1α1) | TAGCTGTAAC | 10 | 68 | 6.80 | 0.00 | 2.99 | <0.001 |
| NM_174998 | Hippocalcin-like 4 (Hpcal4) | CTGCTTCTAA | 10 | 42 | 4.20 | 0.01 | 1.88 | <0.001 |
| NM_177407 | Calcium/calmodulin-dependent protein kinase II α (Camk2α) | GCTTCCCCAC | 15 | 49 | 3.27 | 0.03 | 2.32 | <0.001 |
| NM_031161 | Cholecystokinin (Cck) | GGCTGGATGG | 17 | 49 | 2.88 | 0.05 | 2.88 | <0.001 |
| NM_031158 | Ankyrin 1, erythroid (Ank1) | GGCTGGATGG | 17 | 49 | 2.88 | 0.05 | 2.88 | <0.001 |
| NM_011428 | Synaptosomal-associated protein 25 (Snap25) | TATATTAAAT | 79 | 226 | 2.86 | 0.00 | 2.15 | <0.001 |
| NM_022029 | Neurogranin (Nrgn) | TTACCATACT | 62 | 26 | −2.38 opposite | 0.03 | 3.78 opposite | <0.001 |
| NM_011986 | Neurochondrin (Ncdn-pending) | TGGACACTCA | 121 | 37 | −3.27 | 0.00 | −1.64 | 0.004 |
| NM_009976 | Cystatin C (Cst3) | CCTTGCTCAA | 352 | 106 | −3.32 | 0.00 | −1.12 | 0.129 NS |
| NM_016755 | ATP synthase, H+ transporting, mitochondrial F0 complex, subunit F (Atp5j) | AATTAGTTGT | 46 | 14 | −3.29 | 0.01 | −1.15 | 0.012 |
| NM_008791 | Purkinje cell protein 4 (Pcp4) | AAGAGAAACC | 47 | 14 | −3.36 | 0.01 | −2.11 | <0.001 |
| NM_008722 | Nucleophosmin 1 (Npm1) | TGAAATAAAC | 29 | 7 | −4.14 | 0.07 | −2.14 | <0.001 |
| NM_015744 | Ectonucleotide pyrophosphatase/phosphodiesterase 2 (Enpp2) | GTGCTGCCAG | 39 | 9 | −4.33 | 0.00 | −3.07 | <0.001 |
| NM_010758 | Myelin-associated glycoprotein (Mag) | AAATAAATGT | 29 | 6 | −4.83 | 0.03 | −2.30 | <0.001 |
| NM_010882 | Necdin (Ndn) | TATGCAACCC | 53 | 10 | −5.30 | 0.00 | −2.38 | <0.001 |
| NM_013746 | Pleckstrin homology domain containing, family B (evectins) member 1 (Plekhb1) | ATTGGCCCCA | 62 | 10 | −6.20 | 0.00 | −1.77 | <0.001 |
| NM_007705 | Cold-inducible RNA-binding protein (Cirbp) | CATACTCCAT | 11 | 0 | Hypothalamus-specific | 0.07 | −1.29 | 0.009 |
Note that multiple SAGE tags can be mapped to the same gene identity and vice versa. A negative sign preceding fold-enrichment value indicates enrichment in the hypothalamus. NS, not significant.