Table 3 of
Bergeron, Mol Vis 2012; 18:1813-1822. Table 3 of
Bergeron, Mol Vis 2012; 18:1813-1822.
Table 3. SSH differentially expressed genes validated by cDNA microarray analysis (fold-change >-1.5).
Genes |
Chromosomal location |
GenBank accession# |
Biological process |
SSH redundancy |
Microarray fold-change UMI/UVM |
Microarray fold-change UMII/UVM |
|---|---|---|---|---|---|---|
| ADAM metallopeptidase domain 10 (ADAM10) | 15q22 | NM_001110 | NOTCH signaling | 1 | −6.37 | −2.68 |
| Adenosylhomocysteinase-like 1 (AHCYL1) | 1p13.2 | NM_006621 | Ion transport | 1 | −1.51 | −1.10 |
| Alpha-kinase 1 (ALPK1) | 4q25 | NM_025144 | Protein phosphorylation | 1 | −4.19 | −2.46 |
| ATPase H+ transporting lysosomal 70 kDa V1 subunit A (ATP6V1A) | 3q13.31 | NM_001690 | ATP hydrolysis | 1 | −5.37 | −6.27 |
| BCL2-associated transcription factor 1 (BCLAF1) | 6q23 | NM_014739 | Apoptosis | 1 | −4.83 | −1.33 |
| Calumenin (CALU) | 7q32.1 | NM_001219 | Calcium binding | 5 | −2.01 | −1.51 |
| Casein kinase 1 gamma 1 (CSNK1G1) | 15q22.31 | NM_022048 | WNT signaling | 1 | −1.50 | −1.51 |
| Casein kinase 2 alpha prime polypeptide (CSNK2A2) | 16q21 | NM_001896 | WNT signaling | 1 | −1.12 | −1.75 |
| Catenin (cadherin-associated protein) beta 1 (CTNNB1) | 3p21 | NM_001904 | WNT signaling | 4 | −1.38 | −2.33 |
| Cathepsin A (CTSA) | 20q13.1 | NM_000308 | Protein transport | 1 | −4.07 | −6.00 |
| CCR4-NOT transcription complex subunit 2 (CNOT2) | 12q15 | NM_014515 | RNA splicing | 2 | −2.12 | −1.67 |
| Chromosome 7 open reading frame 64 (C7orf64) | 7q21.2 | NM_032120 | Nucleotide metabolism | 1 | −2.10 | −2.25 |
| Coatomer protein complex subunit beta 2 (COPB2) | 3q23 | NM_004766 | Protein transport | 1 | −1.30 | −1.66 |
| Dolichyl-phosphate N-acetylglucosaminephosphotransferase 1 (DPAGT1) | 11q23.3 | NM_001382 | Protein glycosylation | 1 | −1.56 | −1.41 |
| Dopachrome tautomerase (DCT) | 13q32 | NM_001922 | Melanocyte differentiation | 4 | −22.30 | −89.81 |
| Drosha RNase type III (DROSHA) | 5p13.3 | NM_013235 | Gene silencing | 1 | −2.08 | 1.10 |
| Eukaryotic translation initiation factor 4 gamma 3 (EIF4G3) | 1p36.12 | NM_003760 | Translation | 1 | −5.41 | −1.43 |
| Glucosidase beta acid (GBA) | 1q21 | NM_000157 | Glycolipid metabolism | 1 | −3.67 | −3.40 |
| H2A histone family member Z (H2AFZ) | 4q24 | NM_002106 | Embryonic development | 2 | −1.72 | −3.18 |
| Integrin beta 8 (ITGB8) | 7p21.1 | NM_002214 | Cell adhesion | 1 | −1.90 | −1.33 |
| Isoleucine-tRNA synthetase (IARS) | 9q21 | NM_013417 | Translation | 1 | −1.66 | 1.17 |
| Karyopherin alpha 2 (KPNA2) | 17q24.2 | NM_002266 | Cell cycle | 1 | −1.15 | −1.50 |
| Lactate dehydrogenase B (LDHB) | 12p12.1 | NM_002300 | Glycolysis | 1 | −1.68 | 1.97 |
| Leucyl-tRNA synthetase (LARS) | 5q32 | NM_020117 | ATP hydrolysis | 1 | −2.57 | −1.08 |
| Lysosomal trafficking regulator (LYST) | 1q42.3 | NM_000081 | Pigmentation | 1 | −5.59 | −5.15 |
| Malectin (MLEC) | 12q24.31 | NM_014730 | Protein glycosylation | 1 | −1.61 | −1.36 |
| RAB27A member RAS oncogene family (RAB27A) | 15q21.3 | NM_004580 | Melanocyte differentiation | 3 | −2.64 | −1.76 |
| Microophthalmia-associated transcription factor (MITF) | 3p14.1 | NM_198159 | Melanocyte differentiation | 1 | −2.91 | −2.11 |
| NHS-like 1 (NHSL1) | 6q23.3 | NM_020464 | Unknown | 1 | −1.95 | −2.35 |
| Nucleoporin 93 kDa (NUP93) | 16q13 | NM_014669 | Glycolysis | 1 | −2.18 | −2.16 |
| Plasma glutamate carboxy-peptidase (PGCP) | 8q22.2 | NM_016134 | Proteolysis | 2 | −4.78 | −4.30 |
| Prosaposin (PSAP) | 10q21 | NM_002778 | Lipid metabolism | 1 | −1.39 | −1.87 |
| Prostaglandin reductase 1 (PTGR1) | 9q31.3 | NM_012212 | LTB4 metabolism | 1 | −2.22 | −1.17 |
| Protein kinase D3 (PRKD3) | 2p21 | NM_005813 | PKC signaling | 1 | −3.59 | −2.69 |
| Radixin (RDX) | 11q23 | NM_002906 | Microvillus assembly | 1 | −1.71 | −1.07 |
| Ras-like without CAAX 1 (RIT1) | 1q22 | NM_006912 | NGFR signaling | 1 | −1.27 | −1.67 |
| Recombination signal binding protein for immunoglobulin kappa J region (RBPJ) | 4p15.2 | NM_005349 | NOTCH signaling | 2 | −6.66 | −3.94 |
| Retinol dehydrogenase 11 (RDH11) | 14q24.1 | NM_016026 | Retinoid metabolism | 1 | −10.21 | −8.28 |
| Serine carboxy-peptidase 1 (SCPEP1) | 17q22 | NM_021626 | Retinoic acid metabolism | 1 | −2.52 | −3.29 |
| Signal peptidase complex subunit 1 (SPCS1) | 3p21.1 | NM_014041 | Insulin secretion | 1 | 1.68 | −1.50 |
| Solute carrier family 11 member 2 (SLC11A2) | 12q13 | NM_000617 | Iron absorption | 1 | −7.21 | −5.27 |
| Solute carrier family 16 member 6 (SLC16A6) | 17q24.2 | NM_004694 | Glycolysis | 2 | −181.62 | −46.58 |
| Solute carrier family 25 member 5 (SLC25A5) | Xq24 | NM_001152 | Cell respiration | 1 | −1.37 | −1.61 |
| Sorting nexin family member 27 (SNX27) | 1q21.3 | NM_030918 | Protein transport | 5 | −1.61 | −1.09 |
| Sperm associated antigen 5 (SPAG5) | 17q11.2 | NM_006461 | Cell cycle | 1 | −1.80 | −1.14 |
| Subunit of the oligosaccharyl-transferase complex homolog A (STT3A) | 11q23.3 | NM_152713 | Protein glycosylation | 2 | −2.03 | −1.68 |
| Transaldolase 1 (TALDO1) | 11p15.5 | NM_006755 | Cell respiration | 1 | −1.23 | −1.87 |
| Transcription elongation factor B (SIII) polypeptide 1 (TCEB1) | 8q21.11 | NM_005648 | Transcription | 1 | −1.65 | 2.43 |
| Transferrin receptor (TFRC) | 3q29 | NM_003234 | Response to hypoxia | 1 | −4.40 | −4.12 |
| Transient receptor potential cation channel subfamily M member 1 (TRPM1) | 15q13.3 | NM_002420 | Melanocyte differentiation | 1 | −19.16 | −14.62 |
| Translocase of inner mitochondrial membrane domain containing 1 (TIMMDC1) | 3q13.33 | NM_016589 | Protein transport | 1 | −1.51 | −2.32 |
| Tyrosinase (TYR) | 11q14.3 | NM_000372 | Melanocyte differentiation | 1 | −11.23 | −15.84 |
| Tyrosinase-related protein 1 (TYRP1) | 9p23 | NM_000550 | Melanocyte differentiation | 10 | −7.67 | −11.58 |
| Ubiquitin specific peptidase 4 (USP4) | 3p21.3 | NM_003363 | Protein deubiquitination | 1 | −2.61 | −3.02 |
| Vacuolar protein sorting 35 (VPS35) | 16q12 | NM_018206 | Protein transport | 4 | −1.18 | −1.72 |