Table 1.
Non-redundant differentially expressed genes in Crxp-Nrl/WT or Crxp-Nr2e3/WT samples compared to WT retinas. Gene profiles of P28 retinal samples from Crxp-Nrl/WT or Crxp-Nr2e3/WT mice were compared to those from the WT 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 4 and FDRCI P-value of < 0.1 are shown. AFC, average fold change.
| Gene Symbol | Gene Title | AFC Crxp-Nrl/WT versus WT | AFC Crxp-Nr2e3/WT versus WT | GO biological process description |
|---|---|---|---|---|
| Overlapping genes in Crxp-Nrl/WT and Crxp-Nr2e3/WT versus WT group | ||||
| Gdpd3 | Glycerophosphodiester phosphodiesterase domain containing 3 | 21.4 | 4.6 | Alcohol metabolic process |
| Sgcg | Sarcoglycan, gamma (dystrophin-associated glycoprotein) | 14.8 | 12.1 | Cytoskeleton organization and biogenesis |
| Cap1 | CAP, adenylate cyclase-associated protein 1 (yeast) | 10.2 | 2.1 | Actin cytoskeleton organization and biogenesis |
| Plekhk1 | Pleckstrin homology domain containing, family K member 1 | 6.3 | 4.7 | Regulation of cell proliferation |
| Tsc22d1 | TSC22 domain family, member 1 | 6.0 | 6.5 | Regulation of transcription |
| Paip1 | Polyadenylate binding protein-interacting protein 1 | 4.4 | 2.6 | Regulation of translation |
| Huwe1 | HECT, UBA and WWE domain containing 1 | 4.1 | 3.0 | DNA packaging |
| Abca13 | ATP-binding cassette, sub-family A (ABC1), member 13 | −4.0 | −6.5 | Intracellular protein transport |
| Clca3 | Chloride channel calcium activated 3 | −4.5 | −4.9 | Chloride transport |
| Camk2b | Calcium/calmodulin-dependent protein kinase II, beta | −5.1 | −20.0 | Regulation of phosphorylation |
| Gnat2 | Guanine nucleotide binding protein, alpha transducing 2 | −8.3 | −10.1 | Phototransduction |
| Pttg1 | Pituitary tumor-transforming 1 | −10.3 | −4.2 | Meiotic chromosome segregation |
| Pde6c | Phosphodiesterase 6C, cGMP specific, cone, alpha prime | −15.9 | −13.8 | Activation of MAPK activity/visual perception |
| Opn1mw | Opsin 1 (cone pigments), medium-wave- sensitive (color blindness, deutan) | −38.7 | −37.6 | Phototransduction |
| Arr3 | Arrestin 3, retinal | −56.3 | −31.1 | Regulation of phosphorylation |
| Pde6h | Phosphodiesterase 6H, cGMP-specific, cone, gamma | −75.6 | −70.9 | Activation of MAPK activity/visual perception |
| Opn1sw | Opsin 1 (cone pigments), short-wave- sensitive (color blindness, tritan) | −124.0 | −98.4 | Phototransduction |
| Unique genes in Crxp-Nrl/WT versus WT group | ||||
| Rds | Retinal degeneration, slow (retinitis pigmentosa 7) | 56.5 | 1.5 | Visual perception |
| Nudt21 | Nudix (nucleoside diphosphate linked moiety X)-type motif 21 | 10.3 | 1.1 | |
| Deadc1 | Deaminase domain containing 1 | 6.6 | 1.9 | tRNA processing |
| Atp2b2 | ATPase, Ca++ transporting, plasma membrane 2 | 5.6 | −1.1 | Inner ear development |
| Scd2 | Stearoyl-Coenzyme A desaturase 2 | 5.5 | −1.2 | Fatty acid biosynthetic process |
| Atp6v0a1 | ATPase, H+ transporting, lysosomal V0 subunit A1 | 5.2 | −1.1 | Transcription initiation |
| Stk35 | Serine/threonine kinase 35 | 5.2 | 1.2 | Protein amino acid phosphorylation |
| Uhmk1 | U2AF homology motif (UHM) kinase 1 | 4.3 | −1.3 | Protein amino acid phosphorylation |
| Gucy2e | Guanylate cyclase 2e | 4.3 | 1.4 | Visual perception |
| Thbs1 | Thrombospondin 1 | 4.2 | 1.1 | Blood vessel morphogenesis |
| Fabp4 | Fatty acid binding protein 4, adipocyte | −4.0 | 1.2 | Regulation of protein kinase activity |
| 5730410E15Rik | RIKEN cDNA 5730410E15 gene | −4.1 | −1.2 | |
| 5330426P16Rik | RIKEN cDNA 5330426P16 gene | −4.1 | −1.4 | |
| Ssbp2 | Single-stranded DNA binding protein 2 | −4.3 | −1.0 | Regulation of transcription |
| Ing3 | Inhibitor of growth family, member 3 | −4.4 | 1.0 | Regulation of transcription |
| Dmd | Dystrophin, muscular dystrophy | −4.4 | 1.1 | Peptide biosynthetic process |
| A930033H14Rik | RIKEN cDNA A930033H14 gene | −4.7 | 1.4 | |
| Aff1 | AF4/FMR2 family, member 1 | −5.0 | −1.3 | Regulation of transcription |
| Vapb | Vesicle-associated membrane protein, associated protein B and C | −5.1 | −1.2 | |
| Scn2b | Sodium channel, voltage-gated, type II, beta | −8.2 | −1.1 | Sodium ion transport |
| Unique genes in Crxp-Nr2e3/WT versus WT group | ||||
| Sox30 | SRY-box containing gene 30 | 1.8 | 6.8 | Regulation of transcription |
| 2900056M20Rik | RIKEN cDNA 2900056M20 gene | −1.9 | −6.6 | |
| LOC552908 | Hypothetical LOC552908 | −1.7 | −10.1 | |