The expression pattern of matrix-producing tumor stroma is of prognostic importance in breast cancer

BMC Cancer

Table 1 ECM gene signatures in TCGA cancer sets

BRCA	COAD	COAD cont	HNSC	KIRC	LUAD	LUSC
ADAM12	ADAM12	ITGA11	COL1A1	COL1A1	COL1A1	AEBP1
BNC2	AEBP1	LUM	COL1A2	COL1A2	COL1A2	COL1A1
CDH11	ANTXR1	MMP2	COL3A1	COL3A1	COL3A1	COL1A2
COL1A1	BNC2	MSRB3	COL6A1	COL5A1	COL5A1	COL3A1
COL1A2	C10orf72	OLFML1	COL6A3	COL5A2	COL5A2	COL5A1
COL3A1	CCDC80	OLFML2B	NID2	FAP	COL6A3	COL6A3
COL5A1	COL1A1	PCOLCE	OLFML2B		THBS2	NID2
COL5A2	COL1A2	PDGFRB	PDGFRB			PDGFRB
COL6A3	COL3A1	SPARC	POSTN			SPARC
DACT1	COL5A1	THBS2	SPARC			THBS2
FAP	COL5A2	THY1	TIMP2
FBN1	COL6A2	TIMP2	VCAN
GLT8D2	COL6A3	VCAN
LUM	COL8A1
POSTN	DCN
SPARC	FAM26E
THBS2	FBN1
VCAN	FSTL1

The signatures were defined by an iterative process. Starting with the expanded ECM gene set (Additional file 3: Table S3) the gene with the lowest mean value of the correlation coefficients of the log2 expression with the genes in the set was removed from the set. The process was reiterated until all genes had a mean correlation coefficient above 0.85

ISSN: 1471-2407