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Table 3 Cross-comparison of array and high-throughput sequencing data with differential regulated miRNAs from other studies

From: Analysis options for high-throughput sequencing in miRNA expression profiling

miRNA Regulation of FTC versus FA (fold change) Citation Methodology Samples
HTS (A) HTS (B) HTS (C) DESeq Reference
hsa-miR-192-5p Down (0.67) Down (0.52) Down (0.50) Down (0.55) Up (1.34) Weber et al., JCEM [28] Selection of markers: miRNA microarray Selection 12 FTC & 8 FA
hsa-miR-192-3p **- **- **- **-  
hsa-miR-197-5p **- **- **- **- Up (1.82)
hsa-miR-197-3p Up (1.26) Up (1.50) Up (1.30) Up (1.39)   Validation: qPCR Validation 5 FTC & 4 FA
hsa-miR-328 Down (0.67) Down (0.59) Down (0.59) Down (0.62) Up (1.49)
hsa-miR-346 **- **- **- **- Up (1.39)
hsa-miR-146b-5p Up (2.26) - (1.04) - (1.06) - (0.80) Up (2.8) Nikiforova et al., JCEM [27] Selection of markers: qPCR assay (TaqMan human panel with 158 miRNAs) Selection 9 FTC & 8 FA
hsa-miR-146b-3p Up (3.14) **- Up (1.50) **-
hsa-miR-155-5p* - (1.13) Down (0.56) Down (0.50) Down (0.58) Up (5.5)
hsa-miR-155-3p **- **- **- **-
hsa-miR-187-5p **- **- **- **- Up (33.4)
hsa-miR-187-3p **- **- **- **-
hsa-miR-221-5p - (0.99) **- - (0.84) **- Up (3.6) Validation: qPCR Validation 5 FTC & 4 FA
hsa-miR-221-3p Up (2.01) Up (3.08) ***Up (1.78) Up (3.77)
hsa-miR-222-5p **- **- **- **- Up (4.5)
hsa-miR-222-3p Up (1.96) Up (1.52) ***Up (1.78) Up (1.77)
hsa-miR-224-5p Up (2.26) **- **- **- Up (6.2)
hsa-miR-224-3p **- **- **- **-
hsa-miR-199b-5p* Up (1.58) Up (1.31) - (1.04) Up (1.33) Down (0.026) Rossing et al., J MolEndocrinol. [29] Selection of markers: miRNA microarray Selection and validation 12 FTC & 12 FA
hsa-miR-199b-3p* Up (1.35) Up (1.90) - (1.19) - (1.20) Down (0.082)
hsa-miR-144-5p Down (0.53) Down (0.31) Down (0.34) Down (0.36) Down (0.14) Validation: leave one out cross-validation, cell lines
hsa-miR-144-3p Down (0.47) Down (0.50) Down (0.51) Down (0.43)
  1. *Very high miRNA abundance of one sample causes increase of mean expression in one of the two tumor groups and may affect fold change result.
  2. **Low abundance (median RPM < 10) or no signal detected.
  3. ***miRNAs have the same seed sequence.