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