Table 2.

List of genes in highly amplified regions (Log2ratio >0.8) significantly correlated with aws ratios (Pearson's, P < 0.05) and associated with copy number gains (unpaired t test, P < 0.05)

GeneAmpliconMean expression-gain*Mean expression-no gainPearson's rPearson's Pt test P
CENPF1q32.3-q41998.0143627.37860.66700.00780.0304
TARBP11q42.2-q42.3236.5295114.68580.87130.00000.0049
REV1L2q11.2360.2726217.28230.89620.00000.0057
ABTB13q21.3200.470693.31060.63000.01310.0217
CP3q24-q25.12554.7366337.40730.72890.00270.0061
MTRR5p15.31-p15.2467.3246197.16420.93930.00000.0325
MYO105p15.2-p15.13346.48121609.30990.85100.00010.0441
ZNF6225p15.2-p15.11535.96651056.12560.93000.00000.0192
RICTOR5p13.2-p13.1362.3871237.18800.64350.01090.0349
LOC2856365p13.1-p12783.3502554.81360.78560.00070.0111
FLJ203237p22.1-p21.3410.1639219.54630.87590.00000.0313
ORAOV111q13.2-q13.41143.1820254.41390.87600.00000.0047
CTTN11q13.2-q13.42102.2700730.93700.89770.00000.0110
IGHMBP211q13.2-q13.486.135041.00030.94670.00000.0004
TPCN211q13.2-q13.4454.9718121.31600.94210.00000.0000
FADD11q13.2-q13.41933.2216672.27860.89690.00000.0073
DHCR711q13.2-q13.42565.4100617.98080.86080.00010.0002
NADSYN111q13.2-q13.41038.2966412.33420.93390.00000.0012
PPFIA111q13.2-q13.4736.2234273.14760.93490.00000.0002
YAP111q22.1-q22.32975.77351398.34030.87120.00000.0033
DCUN1D511q22.1-q22.32198.27051196.41080.89160.00000.0332
MMP311q22.1-q22.3536.29500.25100.90020.00000.0162
MMP111q22.1-q22.38328.3999134.66850.89330.00000.0177
WNT317q21.31-q21.3231.12296.01250.51420.04410.0253
RSAD117q21.33289.6785155.82460.80980.00040.0127
PCTP17q2295.323532.74080.88410.00000.0463
PPM1D17q23.2297.4662180.47710.67910.00650.0364
C19ORF219q123546.07052224.07120.86160.00000.0395
C19ORF1219q12445.7022180.99050.94390.00000.0204
LOC39092719q13.12-q13.1315.66535.60500.65250.00970.0096
SIPA1L319q13.12-q13.1355.474145.09670.63060.01300.0468
PSMC419q13.21104.0261593.27720.87430.00000.0247
FBL19q13.24054.29822452.84170.76840.00110.0200
SUPT5H19q13.21159.5021681.15890.85910.00010.0309
  • * Arithmetic average of Illumina expression values in cell lines with copy number gain/amplification (aws ratios >0.12).

  • Arithmetic average of Illumina expression values in cell lines with no copy number gain/amplification (aws ratios = 0.12).