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Table 1 Summary of run by Coffalyser

From: Homozygous deletion of TNFRSF4, TP73, PPAP2B and DPYD at 1p and PDCD5 at 19q identified by multiplex ligation-dependent probe amplification (MLPA) analysis in pediatric anaplastic glioma with questionable oligodendroglial component

Gene Markers P Run1 P Run2 PC Run1 PC Run2
NOTCH2 01p12 0.9 0.82 0.57 0.55
TNFRSF4 01p36 0.32 0.14 0.52 0.49
GNB1 01p36.33 0.88 0.84 0.43 0.45
TNFRSF14 01p36.32 1.17 0.9 0.48 0.48
TP73 01p36.3 0.14 0.11 0.61 0.57
PARK7 01p36.33-p36.12 1 0.82 0.59 0.57
MFN2 01p36.22 1 1.02 1.24 1.3
PTAFR 01p35-p34.3 1.24 1.01 0.57 0.55
FAF1 01p33 1.2 1.01 0.53 0.52
PPAP2B 01pter-p22.1 0.31 0.26 0.59 0.57
CYP2J2 01p31.3-p31.2 1.28 1.04 0.52 0.54
LPHN2 01p31.1 1.16 0.98 0.57 0.53
GTF2B 01p22-p21 1.1 0.89 0.59 0.59
DPYD 01p22 0.21 0.15 0.59 0.54
NRAS 01p13.2 0.83 0.64 0.63 0.57
LMNA 01q22 1.18 0.91 1 1.05
CRB1 01q31.3 0.74 0.4 0.88 0.88
TNNT2 01q32.1 1.03 0.96 0.74 0.73
SMARCA4 19p13.2 1.06 1.08 1.3 1.39
LDLR 19p13.3 1.17 1.02 1.04 1.04
CCNE1 19q12 0.88 0.81 0.57 0.58
PDCD5 19q12-q13.1 0.2 0.19 0.52 0.5
UPK1A 19q13.13 1.14 0.79 0.62 0.58
TGFB1 19q13.1 0.95 0.83 0.53 0.5
PPP1R15A 19q13.2 0.67 0.42 0.6 0.57
BAX 19q13.3-q13.4 0.5 0.36 0.58 0.58
CHMP2A 19q13.43 0.97 0.85 0.54 0.53
Control 02p16 1.16 1.14 1.04 1.07
Control 03p25.3 1.35 1.15 0.88 0.83
Control 03q 1.07 1.02 1.06 1.05
Control 05q22 1.24 1.13 0.86 0.85
Control 08q 0.89 0.66 0.95 1
Control 08q13 1.23 0.98 1 1.01
Control 09q21 1.07 1.08 1.3 1.39
Control 11q23 1.34 1.09 1.05 1
Control 13q14.3 0.99 1 1.22 1.27
Control 14q 0.94 0.91 1 1
Control 14q22 0.99 1.01 1.23 1.28
Control 15q21.1 1 0.98 0.56 0.56
Control 17q11.2 0.88 0.63 0.89 0.92
Control 17q21 0.98 1 1.22 1.27
  1. Genes are named by their official symbol. P correspond to the pediatric glioma of study and PC to an oligodendroglioma with known 1p/19q codeletion (positive control). Number are the values obtained by Coffalyser analysis, normalized with DNA from 4 healthy volunteers (references). Bold style represents total marker loss and italics Loss of Heterozygosity.