Table 3.
Non-redundant differentially expressed genes in Crxp-Nrl/WT or Crxp-Nr2e3/WT samples compared to rd7 retinas. Gene profiles of P28 retinal samples from Crxp-Nrl/WT or Crxp-Nr2e3/WT were compared to those of rd7 retina. Common genes in Crxp-Nrl/WT and Crxp-Nr2e3/WT, or unique genes from Crxp-Nrl/WT or Crxp-Nr2e3/WT with a minimum fold change of 10 and FDRCI P-value of < 0.1 are shown. AFC, average fold change.
| Gene Symbol | Gene Title | AFC Crxp-Nrl/WT versus rd7 | AFC Crxp-Nr2e3/WT versus rd7 | GO biological process description |
|---|---|---|---|---|
| Overlapping genes in Crxp-Nrl/WT and Crxp-Nr2e3/WT versus rd7 group | ||||
| Eif2s3y | Eukaryotic translation initiation factor 2, subunit 3, structural gene Y-linked | 65.3 | 79.1 | Macromolecule biosynthetic process |
| Ddx3y | DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, Y-linked | 62.1 | 74.0 | |
| Sgcg | Sarcoglycan, gamma (dystrophin-associated glycoprotein) | 14.8 | 10.7 | Cytoskeleton organization and biogenesis |
| Jarid1d | Jumonji, AT rich interactive domain 1D (Rbp2 like) | 11.8 | 11.2 | Regulation of transcription |
| LOC640072 /// | Hypothetical protein LOC640072 /// | −11.3 | −12.6 | |
| LOC677194 | Hypothetical protein LOC677194 | |||
| A230097K15Rik | RIKEN cDNA A230097K15 gene | −12.7 | −11.9 | |
| Arhgdib | Rho, GDP dissociation inhibitor (GDI) beta | −12.8 | −11.9 | Rho GDP-dissociation inhibitor activity |
| Gulo | Gulonolactone (L-) oxidase | −13.6 | −42.6 | L-ascorbic acid biosynthetic process |
| Socs3 | Suppressor of cytokine signaling 3 | −15.8c | −11.6 | Regulation of phosphorylation |
| Bub1b | Budding uninhibited by benzimidazoles 1 homolog, beta (S. cerevisiae) | −20.1 | −14.7 | Regulation of phosphorylation |
| Edn2 | Endothelin 2 | −20.1 | −11.1 | Regulation of vasoconstriction |
| Otop3 | Otopetrin 3 | −28.1 | −28.1 | |
| Fabp7 | Fatty acid binding protein 7, brain | −37.7 | −30.6 | Lipid binding |
| A930009A15Rik | RIKEN cDNA A930009A15 gene | −38.0 | −45.1 | |
| Gnat2 | Guanine nucleotide binding protein, alpha transducing 2 | −39.7 | −48.5 | Phototransduction |
| Opn1mw | Opsin 1 (cone pigments), medium-wave- sensitive (color blindness, deutan) | −40.5 | −39.6 | Phototransduction |
| Arr3 | Arrestin 3, retinal | −50.1 | −25.3 | Regulation of phosphorylation |
| Clca3 | Chloride channel calcium activated 3 | −78.5 | −80.1 | Chloride transport |
| Pde6c | Phosphodiesterase 6C, cGMP specific, cone, alpha prime | −127.0 | −109.7 | Activation of MAPK activity/visual perception |
| Opn1sw | Opsin 1 (cone pigments), short-wave-sensitive (color blindness, tritan) | −223.2 | −218.3 | Phototransduction |
| Pde6h | Phosphodiesterase 6H, cGMP-specific, cone, gamma | −365.1 | −348.2 | Activation of MAPK activity/visual perception |
| Unique genes in Crxp-Nrl/WT versus rd7 group | ||||
| Rds | Retinal degeneration, slow (retinitis pigmentosa 7) | 74.7 | 1.6 | Sensory perception of light stimulus |
| Cap1 | CAP, adenylate cyclase-associated protein 1 (yeast) | 11.3 | 2.3 | Actin cytoskeleton organization and biogenesis |
| Scn2b | Sodium channel, voltage-gated, type II, beta | −10.2 | −1.3 | Sodium ion transport |
| Fabp4 | Fatty acid binding protein 4, adipocyte | −11.3 | −2.4 | Regulation of protein kinase activity |
| Mtmr7 | Myotubularin related protein 7 | −27.7 | −1.3 | Phospholipid dephosphorylation |
| Unique genes in Crxp-Nr2e3/WT versus rd7 group | ||||
| Camk2b | Calcium/calmodulin-dependent protein kinase II, beta | −3.1 | −12.2 | Regulation of phosphorylation |
| LOC552908 | Hypothetical LOC552908 | −2.4 | −14.0 | |