BMC Genomics

Table 4 Correlation analysis of DNA copy number and microarray expression data for the TNFAIP1/POLDIP2 SFGM and ERBB2 CR.

From: Complex sense-antisense architecture of TNFAIP1/POLDIP2 on 17q11.2 represents a novel transcriptional structural-functional gene module involved in breast cancer progression

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].

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ISSN: 1471-2164

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