Table 3

Results from integration of expression and aCGH results: candidate oncogenes and tumor suppressor in MF

Cytogenetic bandCopy number alterationClone position
Affected patients, %Candidate genes
StartStop
7q36 Gain 148089302 151558264 59 FASTK, NUB1, LOC791120 
7q21-7q22 Gain 97314794 102514284 55 AP1S1, SMURF1, ZKSCAN1, C7orf38, CLDN15, ZNF789, RASA4, ZNF498, ZNF789, ARMC10, POLR2J2, ZNHIT1, ZCWPW1, MGC40499 
7q32-7q35 Gain 130270796 143852574 55 TRIM24, CNOT4, PTN, C7orf49, KIAA0738, LUC7L2 
7q11.2 Gain 71274704 76190020 50 GTF2IRD1, ABHD11, NSUN5, NSUN5B, NSUN5C, ELN, WBSCR22, TRIM73 
1p36.2 Gain 11098993 12351219 45 MFN2 
1q31-1q32 Gain 198714422 205087972 45 MDM4, NAV1, RBBP5, IPO9, CSRP1, KIF21B, PPP1R15B, NUCKS1, TIMM17A, SNRPE, KIF14 
5q13 Loss 67677068 70179512 45 TAF9, SERF1A, SERF1B, SMN1, TAF9, GUSBP1 
7p14-7p13 Gain 43272694 45048103 45 CAMK2B, POLR2J4 
7p22-7p21 Gain 1081263 7947777 45 WIPI2, LOC222967, FTSJ2, MICALL2 
1q21-1q22 Gain 146342686 156056126 41 MCL1, CLK2, PRCC, ARHGEF11, HDGF, GPATCH4, JTB, MSTO1, FLAD1, CRTC2, SMG5, ADAR, MRPL24, KRTCAP2, SETDB1, C1orf2, SF3B4, PRPF3, SEMA4A, MTX1, ISG20L2, SNAPAP, ENSA, PLEKHO1, ISG20L2, DAP3, GON4L, C1orf85, APOA1BP, C1orf43, RUSC1, UBAP2L, CDC42SE1, MAPBPIP, SCAMP3, C1orf77, PYGO2, PSMD4, GATAD2B, PEAR1, FDPS, VPS72, MRPL9, IQGAP3, DENND4B, TNFAIP8L2, UBQLN4, SLC39A1, TPM3, PRUNE 
7p15-7p14 Gain 24659178 37825117 41 TAX1BP1, HOXA10, CREB5, HERPUD2, JAZF1, LOC441212, HNRPA2B1, C7orf41, LOC401320, KBTBD2 
9p21 Loss 20351121 22479496 41 CDKN2A, MTAP, LOC554202 
17q21 Gain 39091531 44639847 41 FMNL1, NMT1, NPEPPS, SKAP1, DBF4B, LOC641522, KPNB1, NFE2L1, ARL17P1, GPATCH8, LRRC37A2, TMUB2, ARL17, CCDC43, MAPT, EFTUD2, OSBPL7, ACBD4 
8q24.3 Gain 142790550 Telomere 36 HSF1, RECQL4, PLEC1, PPP1R16A, NFKBIL2, LRRC14, SCRIB, CPSF1, SIAHBP1, CPSF1, RPL8, GPAA1, MGC70857, GPR172A, ZNF7, GPR172A, C8orf33, FBXL6, BOP1, GPAA1, PYCRL, EXOSC4, C8orf30A, CYHR1, SHARPIN, ZNF707, JRK, CYC1, EEF1D, KIFC2, MAF1, COMMD5 
13q14-13q31 Loss 42301191 83766576 36 RB1, KLF12, TPT1, LMO7, HUWE1, RBM26, UTP14C, FNDC3A, DNAJC15, RNASEH2B, NDFIP2, INTS6, RPL13A, PTMA, COG3, DLEU1, 
17q25 Gain 69639765 Telomere 36 CBX4, RECQL5, HGS, SPHK1, MIF4GD, B3GNTL1, UBE2O, NT5C, LOC124512, FLJ21865, SAP30BP, NUP85, C17orf56, NPLOC4, ACTG1, RAB40B, TRIM65, C17orf70, H3F3B, MIF4GD, FLJ30594, KIAA0195, PRPSAP1, MXRA7, FLJ35220, EXOC7, MFSD11, WDR45L, RHBDF2, TSEN54, TIMP2, TNRC6C 
8q24.2 Gain 132799581 137773461 32 ST3GAL1, PHF20L1, KIAA0143 
9p13-9p11.1 Loss 39990599 42614658  (no genes with CNA-associated expression) 
9p21 Loss 22579721   (no genes with CNA-associated expression) 
9q21 Loss 78213759 80495074 32 CEP78, VPS13A 
9q21 Loss 79930787 84622895  (no genes with CNA-associated expression) 
9q21 Loss 84783002 86180561 32 UBQLN1, C9orf103, GKAP1, LOC389765 
9q22-9q31 Loss 101410218 105214273 32 TEX10, MRPL50, TXNDC4, RNF20, ZNF189 
17q22-17q23 Gain 48664511 59626448 32 SUPT4H1, DHX40, PTRH2, AKAP1, FLJ44342, TLK2, RPS6KB1, TUBD1, HEATR6, C17orf71, INTS2, MRPS23, COIL, GDPD1, METTL2A, DDX42, FTSJ3, LOC51136, ICAM2, MKS1, MSI2 
Cytogenetic bandCopy number alterationClone position
Affected patients, %Candidate genes
StartStop
7q36 Gain 148089302 151558264 59 FASTK, NUB1, LOC791120 
7q21-7q22 Gain 97314794 102514284 55 AP1S1, SMURF1, ZKSCAN1, C7orf38, CLDN15, ZNF789, RASA4, ZNF498, ZNF789, ARMC10, POLR2J2, ZNHIT1, ZCWPW1, MGC40499 
7q32-7q35 Gain 130270796 143852574 55 TRIM24, CNOT4, PTN, C7orf49, KIAA0738, LUC7L2 
7q11.2 Gain 71274704 76190020 50 GTF2IRD1, ABHD11, NSUN5, NSUN5B, NSUN5C, ELN, WBSCR22, TRIM73 
1p36.2 Gain 11098993 12351219 45 MFN2 
1q31-1q32 Gain 198714422 205087972 45 MDM4, NAV1, RBBP5, IPO9, CSRP1, KIF21B, PPP1R15B, NUCKS1, TIMM17A, SNRPE, KIF14 
5q13 Loss 67677068 70179512 45 TAF9, SERF1A, SERF1B, SMN1, TAF9, GUSBP1 
7p14-7p13 Gain 43272694 45048103 45 CAMK2B, POLR2J4 
7p22-7p21 Gain 1081263 7947777 45 WIPI2, LOC222967, FTSJ2, MICALL2 
1q21-1q22 Gain 146342686 156056126 41 MCL1, CLK2, PRCC, ARHGEF11, HDGF, GPATCH4, JTB, MSTO1, FLAD1, CRTC2, SMG5, ADAR, MRPL24, KRTCAP2, SETDB1, C1orf2, SF3B4, PRPF3, SEMA4A, MTX1, ISG20L2, SNAPAP, ENSA, PLEKHO1, ISG20L2, DAP3, GON4L, C1orf85, APOA1BP, C1orf43, RUSC1, UBAP2L, CDC42SE1, MAPBPIP, SCAMP3, C1orf77, PYGO2, PSMD4, GATAD2B, PEAR1, FDPS, VPS72, MRPL9, IQGAP3, DENND4B, TNFAIP8L2, UBQLN4, SLC39A1, TPM3, PRUNE 
7p15-7p14 Gain 24659178 37825117 41 TAX1BP1, HOXA10, CREB5, HERPUD2, JAZF1, LOC441212, HNRPA2B1, C7orf41, LOC401320, KBTBD2 
9p21 Loss 20351121 22479496 41 CDKN2A, MTAP, LOC554202 
17q21 Gain 39091531 44639847 41 FMNL1, NMT1, NPEPPS, SKAP1, DBF4B, LOC641522, KPNB1, NFE2L1, ARL17P1, GPATCH8, LRRC37A2, TMUB2, ARL17, CCDC43, MAPT, EFTUD2, OSBPL7, ACBD4 
8q24.3 Gain 142790550 Telomere 36 HSF1, RECQL4, PLEC1, PPP1R16A, NFKBIL2, LRRC14, SCRIB, CPSF1, SIAHBP1, CPSF1, RPL8, GPAA1, MGC70857, GPR172A, ZNF7, GPR172A, C8orf33, FBXL6, BOP1, GPAA1, PYCRL, EXOSC4, C8orf30A, CYHR1, SHARPIN, ZNF707, JRK, CYC1, EEF1D, KIFC2, MAF1, COMMD5 
13q14-13q31 Loss 42301191 83766576 36 RB1, KLF12, TPT1, LMO7, HUWE1, RBM26, UTP14C, FNDC3A, DNAJC15, RNASEH2B, NDFIP2, INTS6, RPL13A, PTMA, COG3, DLEU1, 
17q25 Gain 69639765 Telomere 36 CBX4, RECQL5, HGS, SPHK1, MIF4GD, B3GNTL1, UBE2O, NT5C, LOC124512, FLJ21865, SAP30BP, NUP85, C17orf56, NPLOC4, ACTG1, RAB40B, TRIM65, C17orf70, H3F3B, MIF4GD, FLJ30594, KIAA0195, PRPSAP1, MXRA7, FLJ35220, EXOC7, MFSD11, WDR45L, RHBDF2, TSEN54, TIMP2, TNRC6C 
8q24.2 Gain 132799581 137773461 32 ST3GAL1, PHF20L1, KIAA0143 
9p13-9p11.1 Loss 39990599 42614658  (no genes with CNA-associated expression) 
9p21 Loss 22579721   (no genes with CNA-associated expression) 
9q21 Loss 78213759 80495074 32 CEP78, VPS13A 
9q21 Loss 79930787 84622895  (no genes with CNA-associated expression) 
9q21 Loss 84783002 86180561 32 UBQLN1, C9orf103, GKAP1, LOC389765 
9q22-9q31 Loss 101410218 105214273 32 TEX10, MRPL50, TXNDC4, RNF20, ZNF189 
17q22-17q23 Gain 48664511 59626448 32 SUPT4H1, DHX40, PTRH2, AKAP1, FLJ44342, TLK2, RPS6KB1, TUBD1, HEATR6, C17orf71, INTS2, MRPS23, COIL, GDPD1, METTL2A, DDX42, FTSJ3, LOC51136, ICAM2, MKS1, MSI2 

Genes reported as cancer-related according to the EBI cancer gene database are shown in bold; the remaining genes are ordered according to statistical significance of differential expression. mRNA expression levels of genes underlined are determined by Q-RT-PCR.

View Large
This Feature Is Available To Subscribers Only

or Create an Account

Close Modal
Close Modal