Table 5.
Differentially expressed genes in melanoma tumors responding to RAF265 compared with those expressed in melanoma tumors not responding to RAF265
| Gene symbol | Description |
P value responder/ nonresponder |
Fold change/RAF265 responder/nonresponder |
|---|---|---|---|
| SERPINA3** | Serpin peptidase inhibitor clade A | 0.037 | 5.77 |
| CNTN1** | Contactin 1 | 0.018 | 5.04 |
| SLC25A27 | Solute carrier family25 member27 | 0.012 | 4.78 |
| MPPED2** | Metallophosphoesterase domain containing 2 | 0.024 | 4.66 |
| ANO4 | Anoctamin 4 | 0.007 | 4.07 |
| RBMY2EP | RNA-binding motif protein, Y-linked, 2E | 0.012 | 3.94 |
| TMEM47** | Transmembrane protein 47 | 0.005 | 3.91 |
| ST8SIA6 | ST8α-N-acetyl-neuraminide-α2,5-sialy-transferase | 0.023 | 3.87 |
| NEO1** | Neogenin homolog 1 | 0.013 | 3.84 |
| GPC3** | Glypican3 | 0.006 | 3.50 |
| SLC26A2** | Solute carrier family 26 member 2 | 0.034 | 3.42 |
| TXNDC13** | Thioredoxin domain containing 13 | 0.015 | 3.15 |
| PDGFD** | Platelet-derived growth factor D | 0.011 | 3.14 |
| ETNK2 | Ethanolamine kinase 2 | 0.032 | 3.12 |
| GNG7 | Guanine nucleotide binding protein gamma 7 | 0.001 | 3.09 |
| AMD1 | Adenosylmethionine decarbosylase 1 | 0.011 | 3.07 |
| ZNF320 | Zinc finger binding protein 320 | 0.011 | 2.99 |
| ANGPTL7 | Angiopoietin-like 7 | 0.0002 | 2.98 |
| NPAL3 | NPA-like domain containing 3 | 0.029 | 2.97 |
| F5 | Coagulation factor V | 0.015 | 2.95 |
| CTSF** | Cathepsin F | 0.0002 | 2.91 |
| CTGF** | Connective tissue growth factor | 0.028 | 2.90 |
| RAPGEF4 | Rap guanine nucleotide exchange factor | 0.011 | 2.88 |
| ABCA5 | ATP-binding cassette,A5 | 0.013 | 2.77 |
| RPL15 | Ribosomal protein L15 | 0.023 | 2.75 |
| GLT8D4 | Glycosyltransferase 8 domain containing 4 | 0.013 | 2.74 |
| WDR17 | WD repeat domain 17 | 0.039 | 2.74 |
| F2R* | Coagulation factor 2 receptor | 0.039 | 2.70 |
| SPRY2** | Sprouty homolog 2 | 0.039 | 2.70 |
| SCRG1** | Scrapie responsive protein 1 | 0.015 | 2.64 |
| MBNL2 | Muscleblind-like 2 | 0.034 | 2.63 |
| PCMTD2 | Protein-D-aspartate-O-methyltransferase | 0.023 | 2.62 |
| KCNJ10** | Potassium inwardly rectifying channel J10 | 0.024 | 2.57 |
| CRHR1** | Corticotropin releasing hormone receptor 1 | 0.026 | 2.56 |
| CD44 | CD44 molecule (Indian Blood Group) | 0.006 | 2.49 |
| CD59 | Complement regulatory protein | 0.038 | 2.46 |
| C5orf26 | Chromosome 5 open reading frame 26 | 0.019 | 2.42 |
| NR1D2 | Nuclear receptor subfamily1 D2 | 0.011 | 2.42 |
| GAPDHS | Glyceraldehyde-3-phosphate dehydrogenase | 0.032 | 2.39 |
| SNX7 | Sorting nexin 7 | 0.030 | 2.35 |
| FBXO32 | F-box protein 32 | 0.042 | 2.34 |
| FOXR2 | Forkhead box R2 | 0.037 | 2.31 |
| SPATA13 | Spermatogenesis associated 13 | 0.037 | 2.29 |
| SLITRK6 | SLIT, NTRK-like family member 6 | 0.039 | 2.28 |
| ARID5B | AT-rich interactive domain 5B | 0.013 | 2.28 |
| TAPT1 | Transmembrane anterior/posterior transformation | 0.032 | 2.27 |
| MCTP1 | Multiple C2 domains, transmembrane 1 | 0.031 | 2.27 |
| MRAP2 | Melanocortin 2 receptor accessory protein 2 | 0.033 | 2.25 |
| CDK6** | Cyclin-dependent kinase 6 | 0.046 | 2.24 |
| PDZRN3 | PDZ domain containing ring finger 3 | 0.036 | 2.24 |
| C20orf30 | Chromosome 20 ORF 30 | 0.033 | 2.23 |
| ZCCHC14 | Zinc finger CCHC domain containing 14 | 0.013 | 2.21 |
| RPL22 | Ribosomal protein L22 | 0.019 | 2.20 |
| TSC22D1 | TSC22 domain family member 1 | 0.001 | 2.19 |
| PLCB1** | Phospholipase C beta 1 | 0.032 | 2.18 |
| CYP39A1 | Cytochrome P450 family 39,A1 | 0.013 | 2.15 |
| CAMLG | Calcium-modulating ligand | 0.014 | 2.13 |
| AIG1 | Androgen induced 1 | 0.037 | 2.11 |
| AQP7P1 | Aquaporin 7 pseudogene 1 | 0.025 | 2.10 |
| ACSS2 | Actyl-CoA synthetase short-chain 2 | 0.006 | 2.09 |
| HPS5 | Hermansky-Pudlak syndrome 5 | 0.006 | 2.08 |
| CDC42EP3** | CDC42 effector protein 3 | 0.021 | 2.08 |
| ANKRD10 | Ankyrin repeat domain 10 | 0.004 | 2.08 |
| ZNF844 | Zinc finger protein 844 | 0.015 | 2.07 |
| PIGA** | Phosphatidylinositol glycan anchor biosynthesis A | 0.035 | 2.07 |
| AMFR | Autocrine motility factor receptor | 0.043 | 2.06 |
| FAM172A | Family with sequence similarity 172A | 0.027 | 2.04 |
| ENDOD1** | Endonuclease domain containing 1 | 0.037 | 2.04 |
| TBC1D19 | TBC1 domain family member 19 | 0.011 | 2.03 |
| SLC12A2** | Solute carrier family 12A2 | 0.039 | 2.03 |
| JMY** | Junction-mediating and regulatory protein | 0.037 | 2.01 |
| FLJ26056 | Hypothetical protein LOC375127 | 0.048 | 0.50 |
| LOC728212 | Hypothetical LOC 728212 | 0.038 | 0.48 |
| KNTC1** | Kinetochore associated 1 | 0.012 | 0.47 |
| DKFZP434L187 | Hypothetical LOC 26082 | 0.031 | 0.46 |
| WDHD1** | WD repeat & HMG-box DNA Binding Protein1 | 0.006 | 0.46 |
| MERTK** | c-mer proto-oncogene tyrosine kinase | 0.001 | 0.46 |
| DKFZP434B061 | DKFZP434B061 protein | 0.038 | 0.45 |
| NOSTRIN | Nitric oxide synthase trafficker | 0.032 | 0.38 |
NOTE. **, indicates those genes also detected as differentially expressed between responders and nonresponders by GSEA.