97 genes with Melanoma Phenotype Specific Expression
Back in 2006 we published a list of 105 genes which showed melanoma phenotype specific expression. This was based on an analysis of three different libraries of melanoma cell gene expression data (Hoek et al., 2006). In 2012 we updated the analysis, using a total of six different libraries of data, and identified 97 MPSE genes (Widmer et al., 2012). From the old list we retained 46 genes.
These genes represent the hard core MPSE set because they undergo the largest and most significant changes in expression between phenotypes. As such they are most useful for discriminating between phenotypes by gene expression (see HOPP). However, many other genes also have expression patterns which are significantly linked to phenotype. You may wish to explore whether or not a gene you are interested in has such a relationship by going to the HOPP MPSE Facility.
The numbers in the "Proliferative" and "Invasive" columns refer to standardized expression values which are used in the phenotype prediction algorithm HOPP.
| Probe set | Symbol | Title | Proliferative | Invasive | Phenotype |
| 222294_s_at | --- | --- | 16.675 | 4.442 | Proliferative |
| 204638_at | ACP5 | acid phosphatase 5, tartrate resistant | 16.94 | 3.8275 | Proliferative |
| 213217_at | ADCY2 | adenylate cyclase 2 (brain) | 4.263 | 0.6735 | Proliferative |
| 203382_s_at | APOE | apolipoprotein E | 16.02 | 2.211 | Proliferative |
| 203381_s_at | APOE | apolipoprotein E | 25.515 | 2.787 | Proliferative |
| 213902_at | ASAH1 | N-acylsphingosine amidohydrolase (acid ceramidase) 1 | 36.02 | 11.03 | Proliferative |
| 210980_s_at | ASAH1 | N-acylsphingosine amidohydrolase (acid ceramidase) 1 | 83.565 | 23.32 | Proliferative |
| 213702_x_at | ASAH1 | N-acylsphingosine amidohydrolase (acid ceramidase) 1 | 109.35 | 39.19 | Proliferative |
| 220451_s_at | BIRC7 | baculoviral IAP repeat-containing 7 | 12.575 | 1.65 | Proliferative |
| 220941_s_at | C21orf91 | chromosome 21 open reading frame 91 | 6.669 | 1.6525 | Proliferative |
| 211890_x_at | CAPN3 | calpain 3, (p94) | 42.32 | 1.4 | Proliferative |
| 214475_x_at | CAPN3 | calpain 3, (p94) | 47.495 | 0.9265 | Proliferative |
| 201131_s_at | CDH1 | cadherin 1, type 1, E-cadherin (epithelial) | 1.379 | 0.214 | Proliferative |
| 211804_s_at | CDK2 | cyclin-dependent kinase 2 | 40.085 | 6.9255 | Proliferative |
| 204252_at | CDK2 | cyclin-dependent kinase 2 | 64.435 | 15.03 | Proliferative |
| 204995_at | CDK5R1 | cyclin-dependent kinase 5, regulatory subunit 1 (p35) | 4.7575 | 1.076 | Proliferative |
| 209498_at | CEACAM1 | carcinoembryonic antigen-related cell adhesion molecule 1 | 11.015 | 1.3005 | Proliferative |
| 203139_at | DAPK1 | death-associated protein kinase 1 | 8.5955 | 2.7345 | Proliferative |
| 216513_at | DCT | dopachrome tautomerase | 8.893 | 0.607 | Proliferative |
| 216512_s_at | DCT | dopachrome tautomerase | 91.09 | 1.1255 | Proliferative |
| 205337_at | DCT | dopachrome tautomerase | 105.85 | 0.666 | Proliferative |
| 205338_s_at | DCT | dopachrome tautomerase | 122.3 | 1.3885 | Proliferative |
| 51158_at | FAM174B | family with sequence similarity 174, member B | 2.565 | 0.8455 | Proliferative |
| 203397_s_at | GALNT3 | UDP-N-acetyl- -D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 3 | 9.4 | 0.3305 | Proliferative |
| 212959_s_at | GNPTAB | N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits | 33.74 | 12.87 | Proliferative |
| 209169_at | GPM6B | glycoprotein M6B | 15.035 | 1.173 | Proliferative |
| 209168_at | GPM6B | glycoprotein M6B | 17.415 | 1.9235 | Proliferative |
| 209167_at | GPM6B | glycoprotein M6B | 59.38 | 4.4745 | Proliferative |
| 209170_s_at | GPM6B | glycoprotein M6B | 76.9 | 6.255 | Proliferative |
| 206696_at | GPR143 | G protein-coupled receptor 143 | 30.905 | 0.711 | Proliferative |
| 203632_s_at | GPRC5B | G protein-coupled receptor, family C, group 5, member B | 18.065 | 4.647 | Proliferative |
| 210964_s_at | GYG2 | glycogenin 2 | 11.44 | 1.197 | Proliferative |
| 54037_at | HPS4 | Hermansky-Pudlak syndrome 4 | 7.389 | 2.132 | Proliferative |
| 218402_s_at | HPS4 | Hermansky-Pudlak syndrome 4 | 10.46 | 3.1065 | Proliferative |
| 205376_at | INPP4B | inositol polyphosphate-4-phosphatase, type II, 105kDa | 22.035 | 6.794 | Proliferative |
| 204562_at | IRF4 | interferon regulatory factor 4 | 9.8115 | 1.59 | Proliferative |
| 201362_at | IVNS1ABP | influenza virus NS1A binding protein | 21.455 | 8.854 | Proliferative |
| 213478_at | KAZ | kazrin | 16.1 | 5.269 | Proliferative |
| 207323_s_at | MBP | myelin basic protein | 19.69 | 1.692 | Proliferative |
| 209072_at | MBP | myelin basic protein | 60.56 | 1.401 | Proliferative |
| 218376_s_at | MICAL1 | microtubule associated monoxygenase, calponin and LIM domain containing 1 | 11.975 | 3.966 | Proliferative |
| 207233_s_at | MITF | microphthalmia-associated transcription factor | 104.35 | 8.1345 | Proliferative |
| 206426_at | MLANA | melan-A | 74.925 | 0.524 | Proliferative |
| 206427_s_at | MLANA | melan-A | 187.6 | 0.687 | Proliferative |
| 212338_at | MYO1D | myosin ID | 7.438 | 1.554 | Proliferative |
| 207978_s_at | NR4A3 | nuclear receptor subfamily 4, group A, member 3 | 4.151 | 0.831 | Proliferative |
| 209959_at | NR4A3 | nuclear receptor subfamily 4, group A, member 3 | 8.4255 | 1.4925 | Proliferative |
| 206498_at | OCA2 | oculocutaneous albinism II | 11.65 | 1.2525 | Proliferative |
| 213638_at | PHACTR1 | phosphatase and actin regulator 1 | 26.65 | 2.1535 | Proliferative |
| 207469_s_at | PIR | pirin (iron-binding nuclear protein) | 66.83 | 12.785 | Proliferative |
| 206470_at | PLXNC1 | plexin C1 | 4.304 | 0.6245 | Proliferative |
| 206471_s_at | PLXNC1 | plexin C1 | 4.7685 | 0.477 | Proliferative |
| 213241_at | PLXNC1 | plexin C1 | 24.825 | 1.1 | Proliferative |
| 209848_s_at | PMEL | Premelanosome protein | 246.95 | 1.1995 | Proliferative |
| 209515_s_at | RAB27A | RAB27A, member RAS oncogene family | 37.705 | 9.7065 | Proliferative |
| 219412_at | RAB38 | RAB38, member RAS oncogene family | 56.49 | 7.02 | Proliferative |
| 210138_at | RGS20 | regulator of G-protein signaling 20 | 10.285 | 3.3555 | Proliferative |
| 212122_at | RHOQ | ras homolog gene family, member Q | 11.285 | 4.0495 | Proliferative |
| 212119_at | RHOQ | ras homolog gene family, member Q | 56.235 | 22.075 | Proliferative |
| 221523_s_at | RRAGD | Ras-related GTP binding D | 11.63 | 2.598 | Proliferative |
| 221524_s_at | RRAGD | Ras-related GTP binding D | 37.775 | 8.878 | Proliferative |
| 215028_at | SEMA6A | sema domain, transmembrane domain, and cytoplasmic domain, 6A | 1.9475 | 0.298 | Proliferative |
| 202896_s_at | SIRPA | signal-regulatory protein alpha | 10.815 | 4.349 | Proliferative |
| 202897_at | SIRPA | signal-regulatory protein alpha | 14.555 | 4.726 | Proliferative |
| 221644_s_at | SLC45A2 | solute carrier family 45, member 2 | 23.145 | 0.498 | Proliferative |
| 220245_at | SLC45A2 | solute carrier family 45, member 2 | 37.72 | 1.332 | Proliferative |
| 210942_s_at | ST3GAL6 | ST3 beta-galactoside alpha-2,3-sialyltransferase 6 | 21.465 | 3.4385 | Proliferative |
| 212631_at | STX7 | syntaxin 7 | 19.095 | 5.9865 | Proliferative |
| 209354_at | TNFRSF14 | tumor necrosis factor receptor superfamily, member 14 | 13.19 | 2.4515 | Proliferative |
| 206479_at | TRPM1 | transient receptor potential cation channel, subfamily M, member 1 | 1.188 | 0.2095 | Proliferative |
| 206630_at | TYR | tyrosinase | 133.85 | 1.8765 | Proliferative |
| 205694_at | TYRP1 | tyrosinase-related protein 1 | 73.23 | 0.745 | Proliferative |
| 218971_s_at | WDR91 | WD repeat domain 91 | 7.699 | 3.332 | Proliferative |
| 203651_at | ZFYVE16 | zinc finger, FYVE domain containing 16 | 19.94 | 5.565 | Proliferative |
| 213790_at | ADAM12 | ADAM metallopeptidase domain 12 | 0.3545 | 1.387 | Invasive |
| 202952_s_at | ADAM12 | ADAM metallopeptidase domain 12 | 0.591 | 3.175 | Invasive |
| 203002_at | AMOTL2 | angiomotin like 2 | 4.554 | 11.315 | Invasive |
| 202686_s_at | AXL | AXL receptor tyrosine kinase | 0.8225 | 27.955 | Invasive |
| 210538_s_at | BIRC3 | baculoviral IAP repeat-containing 3 | 0.2515 | 1.141 | Invasive |
| 204726_at | CDH13 | cadherin 13, H-cadherin (heart) | 0.166 | 2.12 | Invasive |
| 204604_at | CDK14 | cyclin-dependent kinase 14 | 2.168 | 6.3055 | Invasive |
| 211343_s_at | COL13A1 | collagen, type XIII, alpha 1 | 0.305 | 4.8645 | Invasive |
| 202552_s_at | CRIM1 | cysteine rich transmembrane BMP regulator 1 (chordin-like) | 0.827 | 7.5345 | Invasive |
| 202551_s_at | CRIM1 | cysteine rich transmembrane BMP regulator 1 (chordin-like) | 1.3245 | 15.83 | Invasive |
| 221541_at | CRISPLD2 | cysteine-rich secretory protein LCCL domain containing 2 | 0.7625 | 2.0775 | Invasive |
| 210764_s_at | CYR61 | cysteine-rich, angiogenic inducer, 61 | 2.255 | 21.695 | Invasive |
| 201289_at | CYR61 | cysteine-rich, angiogenic inducer, 61 | 3.589 | 35.96 | Invasive |
| 204646_at | DPYD | dihydropyrimidine dehydrogenase | 0.3965 | 6.108 | Invasive |
| 201842_s_at | EFEMP1 | EGF-containing fibulin-like extracellular matrix protein 1 | 0.429 | 8.129 | Invasive |
| 201983_s_at | EGFR | epidermal growth factor receptor | 0.4825 | 3.8605 | Invasive |
| 213506_at | F2RL1 | coagulation factor II (thrombin) receptor-like 1 | 0.1935 | 1.327 | Invasive |
| 204421_s_at | FGF2 | fibroblast growth factor 2 (basic) | 1.1395 | 3.1335 | Invasive |
| 208614_s_at | FLNB | filamin B, beta | 3.1465 | 11.825 | Invasive |
| 206307_s_at | FOXD1 | forkhead box D1 | 3.3845 | 10.725 | Invasive |
| 204948_s_at | FST | Follistatin | 2.495 | 12.765 | Invasive |
| 210220_at | FZD2 | frizzled homolog 2 (Drosophila) | 1.387 | 5.4265 | Invasive |
| 212822_at | HEG1 | HEG homolog 1 (zebrafish) | 3.216 | 9.145 | Invasive |
| 213069_at | HEG1 | HEG homolog 1 (zebrafish) | 5.844 | 18.235 | Invasive |
| 219985_at | HS3ST3A1 | heparan sulfate (glucosamine) 3-O-sulfotransferase 3A1 | 0.268 | 1.668 | Invasive |
| 205032_at | ITGA2 | integrin, alpha 2 | 1.337 | 4.5465 | Invasive |
| 201474_s_at | ITGA3 | integrin, alpha 3 | 2.364 | 8.88 | Invasive |
| 221583_s_at | KCNMA1 | potassium large conductance calcium-activated channel M alpha 1 | 0.2425 | 1.497 | Invasive |
| 221584_s_at | KCNMA1 | potassium large conductance calcium-activated channel M alpha 1 | 0.586 | 7.361 | Invasive |
| 202998_s_at | LOXL2 | lysyl oxidase-like 2 | 2.124 | 50.455 | Invasive |
| 211864_s_at | MYOF | myoferlin | 7.407 | 26.005 | Invasive |
| 212298_at | NRP1 | neuropilin 1 | 0.266 | 16.01 | Invasive |
| 210510_s_at | NRP1 | neuropilin 1 | 0.7485 | 7.023 | Invasive |
| 222020_s_at | NTM | neurotrimin | 0.6305 | 3.9455 | Invasive |
| 204589_at | NUAK1 | NUAK family, SNF1-like kinase, 1 | 1.211 | 4.0785 | Invasive |
| 205729_at | OSMR | oncostatin M receptor | 0.9445 | 6.1405 | Invasive |
| 218718_at | PDGFC | platelet derived growth factor C | 1.396 | 13.08 | Invasive |
| 201578_at | PODXL | podocalyxin-like | 0.825 | 6.537 | Invasive |
| 204268_at | S100A2 | S100 calcium binding protein A2 | 1.4025 | 3.8375 | Invasive |
| 205896_at | SLC22A4 | solute carrier family 22, member 4 | 0.5805 | 1.9755 | Invasive |
| 209897_s_at | SLIT2 | slit homolog 2 | 1.0365 | 3.6665 | Invasive |
| 210612_s_at | SYNJ2 | synaptojanin 2 | 0.976 | 3.196 | Invasive |
| 212382_at | TCF4 | transcription factor 4 | 0.358 | 1.605 | Invasive |
| 203753_at | TCF4 | transcription factor 4 | 0.402 | 2.848 | Invasive |
| 213891_s_at | TCF4 | transcription factor 4 | 0.43 | 3.315 | Invasive |
| 201110_s_at | THBS1 | thrombospondin 1 | 0.8315 | 24.895 | Invasive |
| 201109_s_at | THBS1 | thrombospondin 1 | 1.048 | 42.19 | Invasive |
| 216997_x_at | TLE4 | transducin-like enhancer of split 4 | 0.1985 | 0.888 | Invasive |
| 204872_at | TLE4 | transducin-like enhancer of split 4 | 0.853 | 5.4715 | Invasive |
| 204932_at | TNFRSF11B | tumor necrosis factor receptor superfamily, member 11b | 0.2045 | 1.108 | Invasive |
| 203476_at | TPBG | trophoblast glycoprotein | 1.0845 | 17.96 | Invasive |
| 206116_s_at | TPM1 | tropomyosin 1 (alpha) | 7.6335 | 51.005 | Invasive |
| 210987_x_at | TPM1 | tropomyosin 1 (alpha) | 12.585 | 83.55 | Invasive |
| 210986_s_at | TPM1 | tropomyosin 1 (alpha) | 18.35 | 99.125 | Invasive |
| 202369_s_at | TRAM2 | translocation associated membrane protein 2 | 12.505 | 27.435 | Invasive |
| 213425_at | WNT5A | wingless-type MMTV integration site family, member 5A | 0.284 | 7.6665 | Invasive |
| 205990_s_at | WNT5A | wingless-type MMTV integration site family, member 5A | 0.631 | 20.68 | Invasive |
| 210875_s_at | ZEB1 | zinc finger E-box binding homeobox 1 | 0.248 | 2.0565 | Invasive |
| 212764_at | ZEB1 | zinc finger E-box binding homeobox 1 | 0.516 | 8.2985 | Invasive |
| 212758_s_at | ZEB1 | zinc finger E-box binding homeobox 1 | 0.796 | 3.4985 | Invasive |