Transcriptomic classification of genetically engineered mouse models of breast cancer identifies human subtype counterparts

Table 2 Gene set analysis of murine classes and human subtypes

	Human breast cancer subtype
Mouse class	Basal-like			Claudin-low			HER2-enriched			Luminal A			Luminal B			Normal-like			Predicted human counterpart
Mouse class	P-value			P-value			P-value			P-value			P-value			P-value
	U	C	T	U	C	T	U	C	T	U	C	T	U	C	T	U	C	T
WapINT3 ^Ex	0.06	0.09	0.17	-	-	NA	-	-	-	-	0.44	-	0.40	0.34	0.29	-	-	-
Erbb2-like ^Ex	0.33	0.30	0.33	-	-	NA	<1e-4*	0.01*	0.01*	0.31	-	-	0.44	0.40	0.30	-	-	-	HER2-enriched
Class3 ^Ex	-	-	-	0.46	-	NA	0.41	0.17	0.38	0.31	0.28	0.34	-	-	-	0.12	0.14	0.29
Myc ^Ex	0.02*	0.01*	0.03*	-	-	NA	0.22	0.11	0.07	-	-	-	0.06	0.01*	0.02*	-	-	-	Basal-like and Luminal B
PyMT ^Ex	0.41	0.38	-	-	-	NA	0.28	0.09	0.08	0.08	0.33	0.46	0.02	0.10	0.12	-	-	-
Neu ^Ex	-	-	-	-	-	NA	0.44	0.36	0.42	<1e-4*	0.01*	0.02	0.10	0.36	0.43	-	-	-	Luminal A
Normal-like ^Ex	-	-	-	0.14	0.21	NA	-	-	-	-	0.07	0.11	-	-	-	<1e-4*	0.01*	5e-4*	Normal-like
Class8 ^Ex	-	-	-	0.09	0.06	NA	0.48	-	-	0.40	0.46	0.11	-	-	-	0.28	0.25	0.26
Wnt1-Late ^Ex	0.37	-	-	-	-	NA	-	-	-	0.40	0.41	0.42	-	0.46	0.40	0.15	0.01*	0.21
Wnt1-Early ^Ex	0.29	-	-	-	-	NA	-	-	-	0.40	0.19	0.33	0.38	0.40	0.49	0.39	0.08	0.21
p53null-Basal ^Ex	0.04	0.05	0.06	-	-	NA	-	-	0.16	-	-	-	0.48	0.29	0.20	-	-	-	Basal-like
Squamous-like ^Ex	-	-	0.35	0.11	0.02*	NA	0.20	-	-	-	-	-	-	-	-	0.18	0.09	0.10
Stat1 ^Ex	-	-	-	0.37	0.32	NA	0.07	-	-	0.31	0.30	0.16	-	0.48	0.41	0.38	0.39	-
Class14 ^Ex	-	-	-	0.35	0.22	NA	-	-	-	0.17	0.14	0.01*	0.45	-	0.11	0.06	<1e-4*	0.04*	Normal-like
C3Tag ^Ex	0.02*	0.02*	0.03*	0.38	-	NA	-	-	0.24	-	-	-	0.28	0.12	0.02*	-	-	-	Basal-like
Claudin-low ^Ex	-	-	0.38	5e-4*	<1e-4*	NA	-	-	-	-	-	0.20	-	-	0.41	-	-	0.17	Claudin-low
p53null-Luminal ^Ex	0.17	0.07	0.02*	-	-	NA	0.35	0.23	0.15	-	-	-	0.24	0.24	0.16	-	-	-

A comparative analysis of each murine class versus each human subtype. Statistically significant observations are highlighted with an asterisk (P < 0.05, false discovery rate <0.1). Comparisons without a P-value were not found to have a positive association with each other. Abbreviation: U, UNC. C, Combined. T, TCGA. NA, not applicable.

ISSN: 1474-760X