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Table 4 Results from GSEA for breast cancer in FF samples. The following 26 gene sets (GO-terms) were common in all the four lists shown in figure-4(v)

From: Analyses and interpretation of whole-genome gene expression from formalin-fixed paraffin-embedded tissue: an illustration with breast cancer tissues

Gene Set Description # of Genes ES* NES** p-value
metalloexopeptidase activity 37 0.5273 1.6927 0.0000
transforming growth factor beta receptor signaling pathway 67 0.4600 1.6388 0.0192
fatty acid metabolic process 116 0.3829 1.5961 0.0000
sterol transport 26 0.4747 1.5879 0.0417
cholesterol transport 25 0.4770 1.5853 0.0208
vitamin metabolic process 22 0.5190 1.5649 0.0204
regulation of insulin secretion 26 0.4652 1.5559 0.0000
regulation of biomineral formation 26 0.4641 1.5288 0.0000
muscle cell differentiation 40 0.4888 1.5192 0.0408
vitamin binding 121 0.3420 1.4857 0.0385
regulation of blood vessel size 43 0.4805 1.4810 0.0408
regulation of tube size 43 0.4805 1.4810 0.0408
BMP signaling pathway 36 0.5195 1.4783 0.0426
regulation of cell proliferation 171 0.3540 1.4709 0.0200
glucose metabolic process 42 0.3829 1.4667 0.0217
blood circulation 46 0.4345 1.4544 0.0204
branching morphogenesis of a tube 55 0.4291 1.4160 0.0208
regulation of hormone secretion 36 0.3898 1.4101 0.0385
magnesium ion binding 418 0.2887 1.3951 0.0000
GTPase binding 85 0.3092 1.3766 0.0000
response to drug 81 0.3105 1.3461 0.0364
carbohydrate binding 301 0.2844 1.3073 0.0204
small GTPase binding 80 0.2944 1.2867 0.0364
protein dimerization activity 433 0.2449 1.2408 0.0196
negative regulation of DNA metabolic process 23 -0.4876 -1.5264 0.0217
nucleosome 87 -0.6222 -1.5847 0.0417
  1. *ES: Enrichment score, **NES: normalized enrichment score