MRI-based breast cancer radiogenomics using RNA profiling: association with subtypes in a single-center prospective study

Table 3 Summary of differentially expressed genes associated with breast cancer according to MRI phenotypes in histologic subgroups

Histologic subgroup	MRI phenotype	Genes	Q value	Log2FC	P value
ER-positive cancer	Lesion type	CCL3L1	0.047	4.40	0.002
		SNHG12	0.066	3.43	0.002
		MIR206	0.053	2.86	0.002
		SLC39A7	0.048	2.65	0.002
		CD9	0.080	2.04	0.003
		SOX17	0.003	− 2.28	< 0.001
		MIR126	< 0.001	− 3.63	< 0.001
		MIR597	0.001	− 8.05	< 0.001
HER2-positive cancer	Mean of positive pixels on PostcontrastT1 (SSF 2)	MLKL	0.064	2.20	< 0.001
	Mean of positive pixels on T2 (SSF 5)	CXCL10
	0.080	− 3.27	< 0.001
Triple-negative cancer	Standard deviation on PrecontrastT1 (SSF 5)	CLEC3A	0.036	4.50	0.001
		SRGN	0.062	3.72	0.001
		HSPG2	0.084	2.85	0.002
		ABCC5	0.007	2.36	< 0.001
		KMT2D	0.035	2.35	< 0.001
		FBP1	0.035	2.29	< 0.001
		VMP1	0.037	2.26	0.001
		FZD2	0.085	2.06	0.002
		PRDX4	0.094	− 2.80	0.002
		IGLC2	0.016	− 6.18	< 0.001

There were 143 genes that were significantly upregulated (log2FC > 2.0) or downregulated (log2FC < − 2.0) with of P < 0.05 and Q < 0.1 according to the MRI phenotypes in subgroup analysis (Additional file 2, Table S2). Pseudogenes or unidentified genes were not included. Among them, the 20 genes in this Table 3 were reported to be relevant to breast cancer in previous literatures [20,21,22,23,24,25,26,27, 33,34,35,36,37,38,39,40,41,42,43, 45, 46]

ISSN: 1465-542X