Table 4

Functional analysis. Functional analysis of the 13 clusters from the gene signature (for full gene list [see Additional file 2]).

Cluster no.

Top Network overall

Top high level function

Top canonical pathway

Number of focus genes able to be mapped*


79

Cancer Inflammatory disease Cell cycle

Lipid metabolism Molecular transport

cAMP mediated signaling

3

148

Cancer Immune response

Cell cycle

1 carbon pool by folate

28

112

Gene expression

Gene expression Protein synthesis

EGF signaling

10

120

Cell cycle Cellular movement

Cell cycle

G2/M checkpoint

28

375

Cellular movement, inflammatory disease

Carbohydrate metabolism

TGF-beta signaling

4

201

DNA recombination and repair

Cell cycle

G1/S checkpoint

11

521

Cell cycle

Cell cycle

G1/S checkpoint

14

784

Cell death

Cell morphology Cellular development

IL4 signaling

3

859

Gene expression

Cell morphology

None given

4

360

DNA recombination and repair

Cell cycle

None given

6

231

Cell to cell signaling and interaction

Embryonic development

IGF1 pathway

13

110

Cell death Cellular development

Cancer Inflammation

PDGF signaling

14

337

Cell morphology

Cellular function and maintenance

None given

1


* note that clusters (pclust) often contained probe sets that represented the same gene

Loi et al. BMC Genomics 2008 9:239   doi:10.1186/1471-2164-9-239

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