Table 1

Significance of observed pattern of DR scores across all KEGG pathways for different GEO datasets

GEO accession number

Description

P-value


[GEO:GDS2744]

MCF-7 breast cancer cells - dioxin treatment versus control

0.005

[GEO:GDS2649](1)

Early HIV infection CD8+T cells versus uninfected

<0.001

[GEO:GDS2649](2)

Chronic HIV infection CD8+T cells versus uninfected

0.001

[GEO:GDS2649](3)

Non-progressive HIV infection CD8+T cells versus uninfected

0.004

[GEO:GDS2852](1)

Bronchial A549 cells - cytokine treatment at 0 h versus control

0.001

[GEO:GDS2852](2)

Bronchial A549 cells - cytokine treatment at 4 h versus control

<0.001

[GEO:GDS2852](3)

Bronchial A549 cells - cytokine treatment at 12 h versus control

<0.001

[GEO:GDS2852](4)

Bronchial A549 cells - cytokine treatment at 24 h versus control

0.016


Different control versus treated conditions in three microarray datasets indicated by the GDS accession numbers [GEO:GDS2744], [GEO:GDS2649] and [GEO:GDS2852] from the GEO database were used [45] to compare the DR scores across all the pathways on the pathway network (Figure S1 in Additional data file 2) using the meta_DR term in Equation 9. The P-value for the significance of meta_DR is computed using 1,000 random networks whose generation is described in the Materials and methods section.

Thomas et al. Genome Biology 2009 10:R44   doi:10.1186/gb-2009-10-4-r44

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