Individual and combined effects of DNA methylation and copy number alterations on miRNA expression in breast tumors

Table 1 In-cis miRNA families and family members

miRNA family^a	miRNA	MIMAT	Chromosomal location (hg19)	Mature sequence (5′-3′ direction)^b	Aberration^c
miR-148ab-3p/152	miR-148a-3p	MIMAT0000243	7p15.2	UCAGUGCACUACAGAACUUUGU	Hypermethylated/hypogain
	miR-148b-3p	MIMAT0000759	12q13.13	UCAGUGCAUCACAGAACUUUGU	Gain
miR-17/17-5p/20ab/20b-5p/93/106ab/427/518a-3p/519d	miR-106b-5p	MIMAT0000680	7q22.1	UAAAGUGCUGACAGUGCAGAU	Hypogain
	miR-17-5p	MIMAT0000070	13q31.3	CAAAGUGCUUACAGUGCAGGUAG	Hypomethylated/hypogain
	miR-20a-5p	MIMAT0000075	13q31.3	UAAAGUGCUUAUAGUGCAGGUAG	Hypomethylated/hypogain
miR-130ac/301ab/301b/301b-3p/454/721/4295/3666	miR-130b-3p	MIMAT0000691	22q11.21	CAGUGCAAUGAUGAAAGGGCAU	Hypogain
	miR-454-3p	MIMAT0003885	17q22	UAGUGCAAUAUUGCUUAUAGGGU	Hypogain
miR-30abcdef/30abe-5p/384-5p	miR-30b-5p	MIMAT0000420	8q24.22	UGUAAACAUCCUACACUCAGCU	Gain
	miR-30c-5p	MIMAT0000244	6q13	UGUAAACAUCCUACACUCUCAGC	Hypomethylated
	miR-30d-5p	MIMAT0000245	8q24.22	UGUAAACAUCCCCGACUGGAAG	Gain/Hypogain
	miR-30e-5p	MIMAT0000692	1p34.2	UGUAAACAUCCUUGACUGGAAG	Gain
miR-25/32/92abc/363/363-3p/367	miR-92a-3p	MIMAT0000092	13q31.1	UAUUGCACUUGUCCCGGCCUGU	Hypomethylated/hypogain
	miR-92b-3p	MIMAT0003218	1q22	UAUUGCACUCGUCCCGGCCUCC	Gain/Hypogain

^aFrom TargetScan (release 6.2) [2, 33].
^bFrom miRBase (release 18) [38]. Nucleotides in bold highlight the seed sequence.
^cAccording to Wilcoxon rank-sum tests. Aberrations highlighted in bold indicate main aberration type. Hypogain, significant in tests grouping samples with hypomethylation and/or gain.

ISSN: 1474-760X