Table 3

Application of GSEA to the different RMA and fRMA pre-processing and data merging methods

Gene set

RMA

CB RMA

ZS RMA

fRMA


ES

p-value

ES

p-value

ES

p-value

ES

p-value


EGF pathway

-0.4229

0.1285

-0.4542

0.0923

-0.4127

-0.3109

-0.3731

0.3145

Stathmin pathway

-0.4307

0.4712

-0.4281

0.5079

-0.2711

-0.6063

-0.2844

0.9051

Homologous recombination

0.6766

0.0082

0.6956

0.0073

0.6962

0.0019

0.3378

0.5750

BRCA1 pathway

0.2974

0.0278

0.3017

0.0403

0.2982

0.1353

-0.1768

0.8875

HER2 pathway

0.3388

0.5658

0.3475

0.5507

0.4504

0.0730

-0.3795

0.4612


Bevilacqua et al. BMC Bioinformatics 2012 13(Suppl 7):S9   doi:10.1186/1471-2105-13-S7-S9

Open Data