Table 8.

Mapping various gene signatures to core pathways

		Published gene signaturesa
Pathways	GO_ID	Wang	Van 't Veer	Paik	Yu	Sotiriou
ER-positive tumors
Apoptosis	6915	X	X	X	X	X
Regulation of cell cycle	74	X	X	X	X	X
Protein amino acid phosphorylation	6468	X	X	X	X	X
Cytokinesis	910	X	X	X		X
Cell motility	6928				X	X
Cell cycle	7049	X	X	X	X	X
Cell surface receptor-linked signal transd.	7166			X
Mitosis	7067	X	X	X	X	X
Intracellular protein transport	6886	X	X			X
Mitotic chromosome segregation	70	X	X			X
Ubiquitin-dependent protein catabolism	6511		X		X	X
DNA repair	6281	X	X		X	X
Induction of apoptosis	6917	X
Immune response	6955	X			X	X
Protein biosynthesis	6412			X	X	X
DNA replication	6260	X	X		X	X
Oncogenesis	7048			X	X	X
Metabolism	8152	X	X
Cellular defense response	6968	X			X	X
Chemotaxis	6935				X	X
ER-negative tumors
Regulation of cell growth	1558		X
Regul. of G-coupled receptor signaling	8277
Skeletal development	1501	X	X
Protein amino acid phosphorylation	6468	X	X	X	X	X
Cell adhesion	7155	X	X		X	X
Carbohydrate metabolism	5975	X	X
Nuclear mRNA splicing, via spliceosome	398
Signal transduction	7165	X	X	X	X
Cation transport	6812
Calciumion transport	6816
Protein modification	6464
Intracellular signaling cascade	7242	X	X		X	X
mRNA processing	6397
RNA splicing	8380
Endocytosis	6897
Regul. of transcription from PolII promoter	6357				X
Regulation of cell cycle	74	X	X	X
Protein complex assembly	6461		X		X
Protein biosynthesis	6412			X		X
Cell cycle	7049	X	X	X	X	X

^aPublished gene signatures that were studied include the 76-gene signature [8], the 70-gene signature [3], the 16-gene signature [25], the 62-gene signature [26], and the 97-gene signature [23]. Individual genes in each signature were mapped to the top 20 core pathways for ER-positive and ER-negative tumors, a cross indicates a match.