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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.