Table 4

Gene Set Enrichment Analysis to identify functional groups from CDEP identified genes.

Functions (source)

Annotated genes

FDR


ECM-receptor interaction (KEGG)

COL4A2,COL4A1,TNC,COL3A1,COL5A2,COL5A1,COL6A3,COL1A2,COL1A1,LAMB1,COL11A1,THBS2,

FN1,SPP1

1.84 × 10-8

Focal adhesion (KEGG)

CAV1,COL4A2,COL4A1,TNC,COL3A1,COL5A2,COL5A1,MYL9,VEGFC,VEGFA,COL6A3,COL1A2,

COL1A1,LAMB1,THBS2,COL11A1,FN1,SPP1

2.02 × 10-7

Blood vessel development

(GO)

PLAT,CAV1,IL8,COL3A1,COL15A1,COL5A1,VEGFC,APOB,APOE,CTGF,VEGFA,COL1A2,SEMA3C,LOX,COL1A1,CYR61

1.10 × 10-5

Immune response (GO)

CXCL1,POU2AF1,CCL2,BST2,CXCL3,IGJ,CXCL2,CXCL9,IL32,IFI44L,CCL5,CXCL11,HLA-DMA,

HLA-DQA1,PSMB8,CXCL10,PSMB9,CXCL13,TAP1,DEFB1,GBP1

2.06 × 10-6

Inflammatory response (GO)

CXCL1,CCL2,NMI,CXCL3,CXCL2,CXCL9,ANXA1,IDO1,CXCL11,CCL5,CXCL10,FOS,SAA2,CXCL13

5.95 × 10-5


The functional enrichment for the genes identified as consistently differentially expressed between primary and metastatic cancers.

Tsoi et al. BMC Bioinformatics 2011 12:438   doi:10.1186/1471-2105-12-438

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