Table 4

Differentially expressed genes between spontaneous regression, stable, and progressive patients, as identified by ANOVA

Probe set IDGene symbolPGene functionHighly expressed in
210042_s_at CTSZ < .000 Proteolysis Spontaneous regression 
218105_s_at MRPL4 < .000 Translation Spontaneous regression 
200033_at DDX5 < .000 RNA splicing Spontaneous regression 
213748_at TRIM66 < .000 Negative regulation of transcription Spontaneous regression 
212152_x_at ARID1A < .001 Chromatin modification Spontaneous regression 
202525_at PRSS8 < .001 Proteolysis Spontaneous regression 
221670_s_at LHX3 < .001 Regulation of transcription, DNA-dependent Spontaneous regression 
216138_at Unknown < .001 Unknown Spontaneous regression 
203007_x_at LYPLA1 < .001 Lipid metabolic process Spontaneous regression 
212358_at CLIP3 < .001 Unknown Spontaneous regression 
208656_s_at CCNI < .001 Cell cycle Spontaneous regression 
203808_at AKT2 < .001 Protein serine/threonine kinase activity Spontaneous regression 
206989_s_at SFRS2IP < .001 RNA splicing Spontaneous regression 
207521_s_at ATP2A3 < .001 Calcium ion transport Spontaneous regression 
214250_at NUMA1 < .001 Nuclear organization and biogenesis Spontaneous regression 
203332_s_at INPP5D < .001 Signal transduction Spontaneous regression 
201891_s_at B2M < .001 Immune response Spontaneous regression 
218077_s_at ZDHHC3 < .001 Unknown Spontaneous regression 
204183_s_at ADRBK2 < .001 Protein amino acid phosphorylation Spontaneous regression 
204184_s_at ADRBK2 < .001 Protein amino acid phosphorylation Spontaneous regression 
207540_s_at SYK < .001 B-cell receptor signaling pathway Spontaneous regression 
211982_x_at XPO6 < .001 Intracellular protein transport Spontaneous regression 
200858_s_at RPS8 < .001 Structural constituent of ribosome Spontaneous regression 
207961_x_at MYH11 < .001 Calmodulin binding Spontaneous regression 
221318_at NEUROD4 < .001 Nervous system development Spontaneous regression 
208695_s_at RPL39 < .001 Structural constituent of ribosome Spontaneous regression 
208397_x_at KCNJ5 < .001 Potassium ion transport Spontaneous regression 
210260_s_at TNFAIP8 < .001 Apoptosis Spontaneous regression 
221030_s_at ARHGAP24 < .001 Cellular morphology, angiogenesis Spontaneous regression 
218720_x_at SEZ6L2 < .001 Unknown Spontaneous regression 
218949_s_at QRSL1 < .001 Unknown Spontaneous regression 
209269_s_at SYK < .001 B-cell receptor signaling pathway Spontaneous regression 
215883_at LOC401210 < .001 Unknown Spontaneous regression 
204265_s_at GPSM3 < .001 Unknown Spontaneous regression 
210288_at KLRG1 < .001 Cellular defense response Spontaneous regression 
221884_at EVI1 < .001 DNA binding Spontaneous regression 
215288_at TRPC2 < .001 Unknown Spontaneous regression 
211569_s_at HADH < .001 Lipid metabolic process Spontaneous regression 
215467_x_at DHX9 < .001 ATP-dependant RNA helicase activity Spontaneous regression 
212205_at H2AFV < .001 Nucleosome assembly Spontaneous regression 
211416_x_at GGTLA4 < .001 Unknown Spontaneous regression 
218666_s_at STX17 < .001 Unknown Spontaneous regression 
217683_at HBE1 < .001 Heme binding Spontaneous regression 
213042_s_at ATP2A3 < .001 Calcium ion transport Spontaneous regression 
212239_at PIK3R1 < .001 Phosphatidylinositol binding Spontaneous regression 
200972_at TSPAN3 < .01 Unknown Spontaneous regression 
41856_at UNC5B < .01 Apoptosis Spontaneous regression 
202757_at COBRA1 < .000 Negative regulation of transcription Spontaneous regression and stable disease 
206370_at PIK3CG < .000 Negative regulation of apoptosis Spontaneous regression and stable disease 
210556_at NFATC3 < .000 Regulation of transcription from RNA II polymerase promoter Spontaneous regression and stable disease 
207186_s_at BPTF < .000 Chromatin remodeling Spontaneous regression and stable disease 
209527_at EXOSC2 < .000 rRNA processing Spontaneous regression and stable disease 
202173_s_at VEZF1 < .001 Angiogenesis Spontaneous regression and stable disease 
209579_s_at MBD4 < .001 DNA binding Spontaneous regression and stable disease 
219980_at C4orf29 < .001 Unknown Spontaneous regression and stable disease 
212638_s_at WWP1 < .001 Protein modification process Spontaneous regression and stable disease 
219512_at DSN1 < .001 Cell cycle Spontaneous regression and stable disease 
217717_s_at YWHAB < .001 Monooxygenase activity Spontaneous regression and stable disease 
209682_at CBLB < .001 Immune response (negative regulator Spontaneous regression and stable disease 
201684_s_at TOX4 < .001 Unknown Spontaneous regression and stable disease 
212395_s_at KIAA0090 < .001 Unknown Spontaneous regression and stable disease 
202171_at VEZF1 < .001 Angiogenesis Spontaneous regression and stable disease 
206061_s_at DICER1 < .001 miR processing Spontaneous regression and stable disease 
215750_at KIAA1659 < .001 Unknown Spontaneous regression and stable disease 
218518_at C5orf5 < .001 Unknown Spontaneous regression and stable disease 
215075_s_at GRB2 < .001 Epidermal growth factor receptor signaling pathway Spontaneous regression and stable disease 
215698_at RBP2 < .001 Regulation of transcription, DNA dependent Spontaneous regression and stable disease 
219498_s_at BCL11A < .001 Regulation of transcription, DNA dependent Spontaneous regression and stable disease 
212073_at CSNK2A1 < .001 Protein amino acid phosphorylation Spontaneous regression and stable disease 
218607_s_at SDAD1 < .001 Unknown Spontaneous regression and stable disease 
214757_at Unknown < .001 Unknown Spontaneous regression and stable disease 
213229_at DICER1 < .001 miR processing Spontaneous regression and stable disease 
204028_s_at RABGAP1 < .001 Regulation of GTPase activity Spontaneous regression and stable disease 
216022_at WNK1 < .001 Protein serine/threonine kinase activity Spontaneous regression and stable disease 
201514_s_at G3BP1 < .001 Helicase activity Spontaneous regression and stable disease 
218930_s_at TMEM106B < .001 Unknown Spontaneous regression and stable disease 
221006_s_at SNX27 < .001 Protein transport Spontaneous regression and stable disease 
214808_at Unknown < .001 Unknown Spontaneous regression and stable disease 
201960_s_at MYCBP2 < .001 Regulation of transcription, DNA-dependent Spontaneous regression and stable disease 
217888_s_at ARFGAP1 < .001 Vesicle-mediated transport Spontaneous regression and stable disease 
202760_s_at AKAP2/PALM2-AKAP2 < .001 Unknown Spontaneous regression and stable disease 
219547_at COX15 < .001 Mitochondrial electron transport, cytochrome C to oxygen Spontaneous regression and stable disease 
202980_s_at SIAH1 < .000 Apoptosis Stable disease 
217322_x_at Unknown < .001 Unknown Stable disease 
202252_at 7 < .001 Vesicle-mediated transport Stable disease 
220974_x_at SFXN3 < .001 Unknown Stable disease 
200977_s_at TAX1BP1 < .001 Apoptosis Stable disease 
222029_x_at PFDN6 < .001 Unknown Stable disease 
205812_s_at TMED9 < .001 Unknown Stable disease 
202981_x_at SIAH1 < .001 Apoptosis Stable disease 
208971_at UROD < .001 Heme biosynthetic process Stable disease 
204103_at CCL4 < .001 Chemotaxis Stable disease 
212463_at CD59 < .001 Immune response Stable disease 
206352_s_at PEX10 < .001 Peroxisome organization and biogenesis Stable disease 
207024_at CHRND < .001 Ion transport Stable disease 
220305_at MGC3260 < .001 Unknown Stable disease 
221970_s_at NOL11 < .000 Unknown Stable and progressive disease 
214427_at NOL1 < .001 Regulation of proliferation Stable and progressive disease 
201200_at CREG1 < .001 Regulation of cell growth Stable and progressive disease 
208451_s_at C4B < .001 Complement activation Stable and progressive disease 
202433_at SLC35B1 < .001 Carbohydrate transport Stable and progressive disease 
202657_s_at SERTAD2 < .001 Regulation of transcription, DNA-dependent Stable and progressive disease 
214603_at MAGEA2B < .001 Unknown Stable and progressive disease 
215517_at PYGO1 < .001 Unknown Stable and progressive disease 
217600_at SCUBE3 < .001 Calcium ion binding Stable and progressive disease 
220538_at ADM2 < .001 Hormone activity Stable and progressive disease 
209129_at TRIP6 < .001 Focal adhesion formation Stable and progressive disease 
214777_at Unknown < .001 Unknown Stable and progressive disease 
212955_s_at POLR2I < .001 Regulation of transcription Stable and progressive disease 
204847_at ZBTB11 < .001 Unknown Stable and progressive disease 
201124_at ITGB5 < .001 Cell adhesion Stable and progressive disease 
206241_at KPNA5 < .000 Protein transporter activity Progressive disease 
218013_x_at DCTN4 < .000 Unknown Progressive disease 
208980_s_at UBC < .001 unknown Progressive disease 
208803_s_at SRP72 < .001 Signal transduction Progressive disease 
202014_at GADD34 < .001 Cell-cycle arrest Progressive disease 
37028_at GADD34 < .001 Cell-cycle arrest Progressive disease 
219898_at GPR85 < .001 Unknown Progressive disease 
212862_at CDS2 < .001 Phospholipid biosynthetic process Progressive disease 
208274_at OCLM < .001 Visual perception Progressive disease 
211999_at H3F3B < .001 Nucleosome assembly Progressive disease 
212225_at EIF1 < .001 Regulation of translation Progressive disease 
208931_s_at ILF3 < .001 Transcription Progressive disease 
200790_at ODC1 < .001 Polyamine biosynthetic process Progressive disease 
201104_x_at NBPF11 < .001 Unknown Progressive disease 
201044_x_at DUSP1 < .001 MAP kinase tyrosine/serine/threoninephosphatase activity Progressive disease 
203682_s_at IVD < .001 Metabolic process Progressive disease 
201041_s_at DUSP1 < .001 MAP kinase tyrosine/serine/threoninephosphatase activity Progressive disease 
203248_at ZNF24 .001 Transcription factor activity Progressive disease 
Probe set IDGene symbolPGene functionHighly expressed in
210042_s_at CTSZ < .000 Proteolysis Spontaneous regression 
218105_s_at MRPL4 < .000 Translation Spontaneous regression 
200033_at DDX5 < .000 RNA splicing Spontaneous regression 
213748_at TRIM66 < .000 Negative regulation of transcription Spontaneous regression 
212152_x_at ARID1A < .001 Chromatin modification Spontaneous regression 
202525_at PRSS8 < .001 Proteolysis Spontaneous regression 
221670_s_at LHX3 < .001 Regulation of transcription, DNA-dependent Spontaneous regression 
216138_at Unknown < .001 Unknown Spontaneous regression 
203007_x_at LYPLA1 < .001 Lipid metabolic process Spontaneous regression 
212358_at CLIP3 < .001 Unknown Spontaneous regression 
208656_s_at CCNI < .001 Cell cycle Spontaneous regression 
203808_at AKT2 < .001 Protein serine/threonine kinase activity Spontaneous regression 
206989_s_at SFRS2IP < .001 RNA splicing Spontaneous regression 
207521_s_at ATP2A3 < .001 Calcium ion transport Spontaneous regression 
214250_at NUMA1 < .001 Nuclear organization and biogenesis Spontaneous regression 
203332_s_at INPP5D < .001 Signal transduction Spontaneous regression 
201891_s_at B2M < .001 Immune response Spontaneous regression 
218077_s_at ZDHHC3 < .001 Unknown Spontaneous regression 
204183_s_at ADRBK2 < .001 Protein amino acid phosphorylation Spontaneous regression 
204184_s_at ADRBK2 < .001 Protein amino acid phosphorylation Spontaneous regression 
207540_s_at SYK < .001 B-cell receptor signaling pathway Spontaneous regression 
211982_x_at XPO6 < .001 Intracellular protein transport Spontaneous regression 
200858_s_at RPS8 < .001 Structural constituent of ribosome Spontaneous regression 
207961_x_at MYH11 < .001 Calmodulin binding Spontaneous regression 
221318_at NEUROD4 < .001 Nervous system development Spontaneous regression 
208695_s_at RPL39 < .001 Structural constituent of ribosome Spontaneous regression 
208397_x_at KCNJ5 < .001 Potassium ion transport Spontaneous regression 
210260_s_at TNFAIP8 < .001 Apoptosis Spontaneous regression 
221030_s_at ARHGAP24 < .001 Cellular morphology, angiogenesis Spontaneous regression 
218720_x_at SEZ6L2 < .001 Unknown Spontaneous regression 
218949_s_at QRSL1 < .001 Unknown Spontaneous regression 
209269_s_at SYK < .001 B-cell receptor signaling pathway Spontaneous regression 
215883_at LOC401210 < .001 Unknown Spontaneous regression 
204265_s_at GPSM3 < .001 Unknown Spontaneous regression 
210288_at KLRG1 < .001 Cellular defense response Spontaneous regression 
221884_at EVI1 < .001 DNA binding Spontaneous regression 
215288_at TRPC2 < .001 Unknown Spontaneous regression 
211569_s_at HADH < .001 Lipid metabolic process Spontaneous regression 
215467_x_at DHX9 < .001 ATP-dependant RNA helicase activity Spontaneous regression 
212205_at H2AFV < .001 Nucleosome assembly Spontaneous regression 
211416_x_at GGTLA4 < .001 Unknown Spontaneous regression 
218666_s_at STX17 < .001 Unknown Spontaneous regression 
217683_at HBE1 < .001 Heme binding Spontaneous regression 
213042_s_at ATP2A3 < .001 Calcium ion transport Spontaneous regression 
212239_at PIK3R1 < .001 Phosphatidylinositol binding Spontaneous regression 
200972_at TSPAN3 < .01 Unknown Spontaneous regression 
41856_at UNC5B < .01 Apoptosis Spontaneous regression 
202757_at COBRA1 < .000 Negative regulation of transcription Spontaneous regression and stable disease 
206370_at PIK3CG < .000 Negative regulation of apoptosis Spontaneous regression and stable disease 
210556_at NFATC3 < .000 Regulation of transcription from RNA II polymerase promoter Spontaneous regression and stable disease 
207186_s_at BPTF < .000 Chromatin remodeling Spontaneous regression and stable disease 
209527_at EXOSC2 < .000 rRNA processing Spontaneous regression and stable disease 
202173_s_at VEZF1 < .001 Angiogenesis Spontaneous regression and stable disease 
209579_s_at MBD4 < .001 DNA binding Spontaneous regression and stable disease 
219980_at C4orf29 < .001 Unknown Spontaneous regression and stable disease 
212638_s_at WWP1 < .001 Protein modification process Spontaneous regression and stable disease 
219512_at DSN1 < .001 Cell cycle Spontaneous regression and stable disease 
217717_s_at YWHAB < .001 Monooxygenase activity Spontaneous regression and stable disease 
209682_at CBLB < .001 Immune response (negative regulator Spontaneous regression and stable disease 
201684_s_at TOX4 < .001 Unknown Spontaneous regression and stable disease 
212395_s_at KIAA0090 < .001 Unknown Spontaneous regression and stable disease 
202171_at VEZF1 < .001 Angiogenesis Spontaneous regression and stable disease 
206061_s_at DICER1 < .001 miR processing Spontaneous regression and stable disease 
215750_at KIAA1659 < .001 Unknown Spontaneous regression and stable disease 
218518_at C5orf5 < .001 Unknown Spontaneous regression and stable disease 
215075_s_at GRB2 < .001 Epidermal growth factor receptor signaling pathway Spontaneous regression and stable disease 
215698_at RBP2 < .001 Regulation of transcription, DNA dependent Spontaneous regression and stable disease 
219498_s_at BCL11A < .001 Regulation of transcription, DNA dependent Spontaneous regression and stable disease 
212073_at CSNK2A1 < .001 Protein amino acid phosphorylation Spontaneous regression and stable disease 
218607_s_at SDAD1 < .001 Unknown Spontaneous regression and stable disease 
214757_at Unknown < .001 Unknown Spontaneous regression and stable disease 
213229_at DICER1 < .001 miR processing Spontaneous regression and stable disease 
204028_s_at RABGAP1 < .001 Regulation of GTPase activity Spontaneous regression and stable disease 
216022_at WNK1 < .001 Protein serine/threonine kinase activity Spontaneous regression and stable disease 
201514_s_at G3BP1 < .001 Helicase activity Spontaneous regression and stable disease 
218930_s_at TMEM106B < .001 Unknown Spontaneous regression and stable disease 
221006_s_at SNX27 < .001 Protein transport Spontaneous regression and stable disease 
214808_at Unknown < .001 Unknown Spontaneous regression and stable disease 
201960_s_at MYCBP2 < .001 Regulation of transcription, DNA-dependent Spontaneous regression and stable disease 
217888_s_at ARFGAP1 < .001 Vesicle-mediated transport Spontaneous regression and stable disease 
202760_s_at AKAP2/PALM2-AKAP2 < .001 Unknown Spontaneous regression and stable disease 
219547_at COX15 < .001 Mitochondrial electron transport, cytochrome C to oxygen Spontaneous regression and stable disease 
202980_s_at SIAH1 < .000 Apoptosis Stable disease 
217322_x_at Unknown < .001 Unknown Stable disease 
202252_at 7 < .001 Vesicle-mediated transport Stable disease 
220974_x_at SFXN3 < .001 Unknown Stable disease 
200977_s_at TAX1BP1 < .001 Apoptosis Stable disease 
222029_x_at PFDN6 < .001 Unknown Stable disease 
205812_s_at TMED9 < .001 Unknown Stable disease 
202981_x_at SIAH1 < .001 Apoptosis Stable disease 
208971_at UROD < .001 Heme biosynthetic process Stable disease 
204103_at CCL4 < .001 Chemotaxis Stable disease 
212463_at CD59 < .001 Immune response Stable disease 
206352_s_at PEX10 < .001 Peroxisome organization and biogenesis Stable disease 
207024_at CHRND < .001 Ion transport Stable disease 
220305_at MGC3260 < .001 Unknown Stable disease 
221970_s_at NOL11 < .000 Unknown Stable and progressive disease 
214427_at NOL1 < .001 Regulation of proliferation Stable and progressive disease 
201200_at CREG1 < .001 Regulation of cell growth Stable and progressive disease 
208451_s_at C4B < .001 Complement activation Stable and progressive disease 
202433_at SLC35B1 < .001 Carbohydrate transport Stable and progressive disease 
202657_s_at SERTAD2 < .001 Regulation of transcription, DNA-dependent Stable and progressive disease 
214603_at MAGEA2B < .001 Unknown Stable and progressive disease 
215517_at PYGO1 < .001 Unknown Stable and progressive disease 
217600_at SCUBE3 < .001 Calcium ion binding Stable and progressive disease 
220538_at ADM2 < .001 Hormone activity Stable and progressive disease 
209129_at TRIP6 < .001 Focal adhesion formation Stable and progressive disease 
214777_at Unknown < .001 Unknown Stable and progressive disease 
212955_s_at POLR2I < .001 Regulation of transcription Stable and progressive disease 
204847_at ZBTB11 < .001 Unknown Stable and progressive disease 
201124_at ITGB5 < .001 Cell adhesion Stable and progressive disease 
206241_at KPNA5 < .000 Protein transporter activity Progressive disease 
218013_x_at DCTN4 < .000 Unknown Progressive disease 
208980_s_at UBC < .001 unknown Progressive disease 
208803_s_at SRP72 < .001 Signal transduction Progressive disease 
202014_at GADD34 < .001 Cell-cycle arrest Progressive disease 
37028_at GADD34 < .001 Cell-cycle arrest Progressive disease 
219898_at GPR85 < .001 Unknown Progressive disease 
212862_at CDS2 < .001 Phospholipid biosynthetic process Progressive disease 
208274_at OCLM < .001 Visual perception Progressive disease 
211999_at H3F3B < .001 Nucleosome assembly Progressive disease 
212225_at EIF1 < .001 Regulation of translation Progressive disease 
208931_s_at ILF3 < .001 Transcription Progressive disease 
200790_at ODC1 < .001 Polyamine biosynthetic process Progressive disease 
201104_x_at NBPF11 < .001 Unknown Progressive disease 
201044_x_at DUSP1 < .001 MAP kinase tyrosine/serine/threoninephosphatase activity Progressive disease 
203682_s_at IVD < .001 Metabolic process Progressive disease 
201041_s_at DUSP1 < .001 MAP kinase tyrosine/serine/threoninephosphatase activity Progressive disease 
203248_at ZNF24 .001 Transcription factor activity Progressive disease 

Only the probe sets with an Affymetrix expression value greater than 100 in at least 1 clinical subgroup are reported. P values E−06 or E−05 are reported as < .000.

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