An immune response gene expression module identifies a good prognosis subtype in estrogen receptor negative breast cancer

Table 2 Distribution of ER^- samples among clusters, prognostic groups and intrinsic subtypes

Cluster	n	Outcome		LI		ER^-
		Good	Poor	High	Low	Luminal B	Luminal A	Normal	Basal	HER2
CC⁺/IR⁺	39	25	14	7	2	0	0	0	38	1
CC⁺	37	18	17	3	5	0	0	1	33	3
ECM⁺	45	26	18	1	14	0	9	9	22	5
SR⁺	36	16	20	2	4	1	1	0	2	32
IR⁺	29	23	6	6	6	0	4	2	9	14

For the five clusters of Figure 2a, we give the number of samples per cluster (n) and their distributions over good/poor outcome, high/low lymphocytic infiltration (LI) score, and intrinsic subtypes as determined by the single sample predictor (SSP) classifier. Clusters were labeled by the main Gene Ontology of genes over-expressed in the group: CC⁺ (cell cycle), CC⁺/IR⁺ (cell cycle and immune response), ECM⁺ (extracellular matrix), SR⁺ (steroid hormone response), and IR⁺ (immune response). ER, estrogen receptor.

ISSN: 1474-760X