Table 9.
Neuroplasticity-related significant genesa
| Entrez gene | Gene symbol | Gene name | QTL | Combined regions fold (iP vs. iNP) | Individual regionb significant in (fold) |
|---|---|---|---|---|---|
| Decreased expression | |||||
| 58835 | Phgdh | 3-phosphoglycerate dehydrogenase | -1.27 | CPU (e1.33) | |
| 25369 | Adora2a | adenosine A2a receptor | -1.08 | ||
| 24888 | Bcl2l1 | Bcl2-like 1 | -1.11 | ||
| 64547 | Bcl2l11 | BCL2-like 11 (apoptosis facilitator) | -1.08 | ||
| 29182 | Cdh22 | cadherin 22 | Alc17 | -1.43 | |
| 25402 | Casp3 | caspase 3, apoptosis related cysteine protease | Alc7 & 11 | ACB (e1.21) | |
| 114851 | Cdkn1a | cyclin-dependent kinase inhibitor 1A | -1.11 | ||
| 79208 | Epha5 | EphA5 | -1.11 | ||
| 79114 | Fgfr1 | Fibroblast growth factor receptor 1 | -1.11 | AMYG (e1.21) | |
| 25661 | Fn1 | fibronectin 1 | -1.27 | ||
| 65153 | Freq | frequenin homolog (Drosophila) | -1.22 | ||
| 24416 | Grm3 | glutamate receptor, metabotropic 3 | -1.31 | ||
| 25589 | Kdr | kinase insert domain protein receptor | -1.28 | AMYG (e1.50) | |
| 116508 | Nrxn3 | neurexin 3 | Alc17 | -1.11 | |
| 25730 | Ntf5 | neurotrophin 5 | -1.06 | ||
| 29432 | Pak2 | p21 (CDKN1A)-activated kinase 2 | NS | AMYG (e1.20) | |
| 29583 | Pecam | platelet/endothelial cell adhesion molecule | -1.14 | ||
| 29240 | Polb | polymerase (DNA directed), beta | -1.08 | ||
| 24718 | Reln | reelin | -1.14 | ||
| 84357 | Sh3kbp1 | SH3-domain kinase binding protein 1 | -1.1 | ||
| 83467 | Slit3 | slit homolog 3 (Drosophila) | -1.08 | ||
| 60567 | Syt10 | synaptotagmin X | -1.07 | ||
| 116646 | Tpt1 | tumor protein, translationally controlled 1 | -1.11 | ||
| 83785 | Vegfa | vascular endothelial growth factor Ac | -1.16 | ||
| Increased expression | |||||
| 29437 | Acta1 | actin, alpha 1, skeletal muscle | 1.1 | ||
| 24188 | Aldh1a1 | aldehyde dehydrogenase family 1, member A1 | 1.2 | ||
| 295365 | Amigo | amphoretin-induced gene and ORF | Alc15 | 1.11 | AMYG (1.22) |
| 24179 | Agt | angiotensinogen | 1.2 | CPU (1.30) | |
| 83526 | Atrn | attractin | 1.26 | AMYG (1.33) | |
| 117271 | Bid3 | BH3 interacting (with BCL2 family) domain, apoptosis agonist | Alc10 | 1.09 | |
| 25668 | Cd38 | CD38 antigen | 1.13 | ||
| 25599 | Cd74 | CD74 antigen (invariant polpypeptide of major histocompatibility class II antigen-associated) | 1.21 | ||
| 64465 | Cdc42 | cell division cycle 42 homolog (S. cerevisiae) | Alc4 | 1.12 | |
| 25707 | Cntf | ciliary neurotrophic factor | 1.11 | ||
| 192262 | C1s | complement component 1, s subcomponent | Alc18 | 1.07 | |
| 27256 | Cntn6 | contactin 6 | Alc14 & 16 | 1.09 | |
| 29139 | Dcn | decorinc | 1.17 | HIPP (1.29) | |
| 29560 | Hif1a | hypoxia inducible factor 1, alpha subunit | Alc17 | 1.1 | |
| 294235 | Ler3 | immediate early response 3 | 1.11 | ||
| 29197 | Il18 | interleukin 18 | 1.15 | ||
| 362418 | Irak2 | interleukin-1 receptor-associated kinase 2 | Alc14 & 16 | 1.08 | AMYG (1.22) |
| 24558 | Mog | myelin oligodendrocyte glycoprotein | 1.08 | ||
| 83834 | Nrn1 | neuritin | 1.1 | AMYG (1.19) | |
| 24588 | Nef3 | neurofilament 3, medium | 1.16 | ||
| 24587 | Nefh | neurofilament, heavy polypeptide | 1.18 | CPU (1.44) | |
| 83613 | Nfl | neurofilament, light polypeptide | 1.08 | ||
| 81737 | Ntf3 | neurotrophin 3 | Alc18 | 1.07 | |
| 171116 | Opa1 | optic atrophy 1 homolog (human) | 1.12 | ||
| 114108 | Pdlim3 | PDZ and LIM domain 3 | Alc7 & 11 | 1.15 | AMYG (1.28) |
| 29534 | Pxmp3 | peroxisomal membrane protein 3 | 1.08 | ||
| 170538 | Prkcd | protein kinase C, delta | Alc7, 11, & 13 | 1.14 | |
| 64373 | Rhob | rhoB gene | Alc17 | 1.1 | |
| 81921 | Sh3gl3 | SH3 domain protein 2 C1 | NS | AMYG (1.18) | |
| 65047 | Slit1 | slit homolog 1 (Drosophila) | 1.17 | HIPP (1.32) | |
| 29214 | Tubb5 | tubulin, beta 5 | 1.16 | ||
iP = inbred alcohol-preferring rat; iNP = inbred alcoholenon-preferring rat.
Defined as categorized by a Gene Ontology category (apoptosis, regulation of apoptosis, negative regulation of apoptosis, regulation of programmed cell death, positive regulation of apoptosis, central nervous system development, gliogenesis, myelination, axon guidance, axonogenesis, cell migration, regulation of axonogenesis, regulation of neurogenesis, regulation of synapse structure and function, cytoskeleton organization and biogenesis, neuron differentiation) or found through manual curation to have neuroplasticity-related function (Cdh22, Cdc42, Fgfr1, Vegfa, Vegfa, Dcn, Dcn, Epha5, Nrn1, Bid3, Casp3, Ler3, Pak2, Sh3kbp1).
ACB = nucleus accumbens, AMYG = amygdala, FC = frontal cortex, HIPP = hippocampus, CPU = caudate-putamen.
Gene represented by more than one significant probe set. Largest of the multiple fold changes is reported in column 5.