Table 4

Correlation analysis of DNA copy number and microarray expression data for the TNFAIP1/POLDIP2 SFGM and ERBB2 CR.

Affy probesets*

Gene Symbol

SNPs for 17q11.2 SRA

SNPs for 17q12 SRA



rs4239211

rs10512429

rs7207976

rs10512430

rs602688

rs632202

rs620686

rs10491129

rs10491128

rs2517956

rs9303277


220654_at

PPY2

212282_at

TMEM97

0.29

210312_s_at

IFT20

0.41

0.39

0.39

0.39

201207_at

TNFAIP1

0.40

0.33

0.33

0.33

222425_s_at

POLDIP2

0.45

0.39

0.39

0.39

0.29

0.34

0.34

225375_at

TMEM199

0.48

0.41

0.41

0.41

234256_at

SEBOX

204534_at

VTN

213259_s_at

SARM1

207567_at

SLC13A2

207683_at

FOXN1


200029_at

RPL19

0.43

0.43

0.43

0.42

0.35

228888_at

STAC2

0.35

0.35

239224_at

FBXL20

0.54

0.54

0.54

0.50

0.48

0.39

0.39

203497_at

PPARBP

0.58

0.58

0.58

0.63

0.68

0.54

0.54

213557_at

CRKRS

0.45

0.45

0.45

0.50

0.57

0.48

0.48

210271_at

NEUROD2

225165_at

PPP1R1B**

202991_at

STARD3

0.32

0.39

0.50

0.50

205766_at

TCAP**

206793_at

PNMT

221811_at

PERLD1

0.32

0.39

0.39

216836_s_at

ERBB2

0.42

0.42

224447_s_at

C17orf37

0.30

0.50

0.50

210761_s_at

GRB7

0.32

0.49

0.49

221092_at

IKZF3

231442_at

ZPBP2

219233_s_at

GSDML

0.39

0.39

0.39

0.36

0.42

0.41

0.41


Only Kendal-Tau correlation coefficients with α = 1% are shown. Bold font indicates genes shown to be involved in the co-regulatory pattern of the TNFAIP1/POLDIP2 SFGM and ERBB2 amplicon. *Affymetrix U133A&B probesets, **PPP1R1B and TCAP - genes of the ERBB2 amplicon that have been excluded previously from the ERBB2 CR due to their weak expression and nonsignificant correlation with DNA copy number [32,33].

Grinchuk et al. BMC Genomics 2010 11(Suppl 1):S9   doi:10.1186/1471-2164-11-S1-S9

Open Data