Table 1.
Highly expressed 25 SF-miRNAs.
| miRNA a | Mean MCF10 |
Mean MCF7 |
Mean MDA |
Trend b MCF7/MCF10 | Trend b MDA/MCF10 | Genomic Annotation |
Cluster c |
|---|---|---|---|---|---|---|---|
| hsa-mir-6087 * | 5847.1 | 1124.3 | 705.3 | D | D | Intergenic | |
| hsa-mir-21 | 362.6 | 1173.3 | 1155.5 | U | U | Exon, 3′UTR | |
| hsa-mir-1246 | 484.6 | 83.8 | 32.0 | D | D | Intron, LncRNA | |
| hsa-mir-3687 * | 460.6 | 34.9 | 8.2 | D | D | Ribosomal RNA | |
| hsa-mir-100 | 13.1 | 0.0 | 483.4 | D | U | Intron, LncRNA | hsa-mir-526; hsa-let-7a-2 |
| hsa-mir-612 | 450.5 | 1.6 | 3.0 | D | D | LncRNA | |
| hsa-mir-7704 | 296.4 | 41.8 | 20.2 | D | D | Exon, LncRNA | |
| hsa-let-7f-1 | 54.0 | 90.6 | 184.7 | U | U | Intergenic | hsa-let-7a-1; hsa-let-7d |
| hsa-let-7f-2 | 32.1 | 86.0 | 173.2 | U | U | Intergenic | has-mir-98 |
| hsa-let-7g | 20.4 | 84.8 | 170.6 | U | U | Intron, Coding | |
| hsa-mir-3064 | 196.6 | 46.3 | 8.8 | D | D | Mirtron, Coding | hsa-mir-5047 |
| hsa-mir-1291 ** | 88.0 | 147.6 | 14.9 | U | D | Intron, Coding | |
| hsa-let-7i | 21.2 | 62.3 | 140.3 | U | U | Mirtron, LincRNA | |
| hsa-mir-5047 | 163.8 | 14.5 | 1.2 | D | D | Intron, Coding | hsa-mir-3064 |
| hsa-mir-622 | 54.6 | 74.2 | 16.8 | U | D | Intergenic | |
| hsa-mir-19b-1 | 14.0 | 60.1 | 50.6 | U | U | LncRNA | hsa-mir-17; hsa-mir-18a; hsa-mir-19a; hsa-mir-20a; hsa-mir-92a-1 |
| hsa-mir-20a | 15.1 | 53.2 | 51.0 | U | U | LncRNA | hsa-mir-17; hsa-mir-18a; hsa-mir-19a; hsa-mir-19b-1; hsa-mir-92a-1 |
| hsa-mir-222 | 6.5 | 0.0 | 105.5 | D | U | Intron, LncRNA | hsa-mir-221 |
| hsa-mir-30a | 5.2 | 0.8 | 91.1 | D | U | Intron, LincRNA | |
| hsa-mir-148a | 47.4 | 32.4 | 4.0 | D | D | Intergenic | |
| hsa-mir-7161 | 74.7 | 1.9 | 1.2 | D | D | Intron, Coding | |
| hsa-mir-24-1 | 27.1 | 10.2 | 40.3 | D | U | Intron, Coding | hsa-mir-23b; hsa-mir-27b; hsa-mir-3074 |
| hsa-mir-1248 ** | 66.8 | 4.5 | 5.3 | D | D | Intron, Coding | |
| hsa-mir-3607 ** | 57.0 | 10.8 | 4.3 | D | D | Intron, Coding | |
| hsa-mir-221 | 8.5 | 0.0 | 59.7 | D | U | Intron, LncRNA | hsa-mir-222 |
a miRNAs marked by * were removed from the recent version of miRbase (ver22.0); miRNAs marked by ** overlap with SNORA/D. b Expression trend: U, D depicts up and down, respectively. The trend represents the relative level of miRNA expression relative to MCF-10A. c Cluster neighbors are miRNAs within a genomic distance < 10 k, as defined by miRBase. Marked in bold are cluster neighbor miRNAs, which are found among SF-miRNAs (supported by >10 reads). MCF-10A (MCF10), MCF-7 (MCF7), MDA-MB-231 (MDA).