Table 1.
Differential Expression Results from DESeq2 Analysis: Pilot and Cohort Comparison
| Species | Pilot data |
Paired cohort |
Sequence similarity | ||||
|---|---|---|---|---|---|---|---|
| Log2 fold change | padj | Mean CPM | Log2 fold change | padj | Mean CPM | ||
| miR-451a | −3.46 | 1.69 × 10−02 | 101,918 | −1.96 | 1.67 × 10−36 | 21,132 | |
| miR-486 | −4.63 | 1.44 × 10−03 | 275,553 | −4.95 | 2.62 × 10−83 | 507,823 | |
| miR-92a | −4.77 | 2.46 × 10−03 | 169,866 | −5.13 | 0.00 | 150,568 | |
| miR-25 | −2.76 | 1.04 × 10−59 | 9376 | −2.18 | 2.41 × 10−186 | 3668 | miR-92a |
| miR-92b | −2.63 | 1.04 × 10−59 | 875 | −3.45 | 0.00 | 1392 | miR-92a |
| miR-1301 | −1.08 | 3.82 × 10−08 | 74 | −0.80 | 3.79 × 10−39 | 117 | miR-486 |
| miR-7706 | −0.89 | 4.63 × 10−03 | 53 | −0.82 | 1.29 × 10−24 | 55 | miR-486 |
| miR-636 | −0.87 | 2.77 × 10−03 | 27 | −0.83 | 1.95 × 10−19 | 41 | miR-92a |
| miR-1229 | −0.85 | 5.86 × 10−03 | 35 | −1.20 | 2.91 × 10−42 | 78 | miR-486 |
| miR-3173 | −0.84 | 8.61 × 10−04 | 160 | −1.62 | 1.00 × 10−135 | 359 | miR-486 |
| miR-6511a | −0.68 | 2.17 × 10−02 | 143 | −1.15 | 3.92 × 10−68 | 311 | miR-486 |
| miR-6726 | −0.68 | 7.84 × 10−03 | 27 | −1.04 | 2.39 × 10−29 | 69 | miR-92a |
| miR-6803 | −0.65 | 6.84 × 10−03 | 203 | −1.26 | 3.14 × 10−48 | 408 | miR-92a |
| miR-1306 | −0.64 | 8.55 × 10−03 | 94 | −1.16 | 2.06 × 10−114 | 191 | miR-486 |
| miR-22 | −0.61 | 5.86 × 10−03 | 603 | 0.37 | 8.35 × 10−11 | 440 | miR-486 |
| miR-6511b | −0.56 | 3.30 × 10−02 | 113 | −0.84 | 1.82 × 10−38 | 258 | miR-486 |
| miR-374b | −0.47 | 2.09 × 10−02 | 317 | 0.94 | 4.55 × 10−11 | 56 | miR-486 |
| miR-30d | 0.38 | 4.97 × 10−02 | 20,846 | 0.36 | 1.24 × 10−14 | 13,383 | Not tested for sequence similarity |
| miR-941 | 0.54 | 2.86 × 10−02 | 451 | 1.69 | 1.87 × 10−112 | 368 | |
| miR-24 | 0.55 | 2.54 × 10−02 | 350 | 1.43 | 5.09 × 10−47 | 191 | |
| miR-625 | 0.56 | 2.20 × 10−02 | 97 | −0.53 | 1.82 × 10−07 | 65 | |
| miR-182 | 0.57 | 8.89 × 10−04 | 14,595 | ||||
| miR-183 | 0.6 | 4.88 × 10−04 | 3337 | ||||
| miR-100 | 0.63 | 3.67 × 10−03 | 352 | 0.91 | 1.62 × 10−13 | 229 | |
| miR-99b | 0.65 | 5.79 × 10−04 | 183 | 0.49 | 2.09 × 10−12 | 153 | |
| miR-30a | 0.67 | 3.04 × 10−03 | 147 | ||||
| miR-107 | 0.72 | 1.14 × 10−04 | 258 | 1.93 | 6.56 × 10−63 | 173 | |
| miR-3688 | 0.95 | 1.74 × 10−05 | 49 | ||||
| miR-103a | 0.98 | 5.93 × 10−06 | 7411 | 1.73 | 2.12 × 10−175 | 4654 | |
| miR-338 | 2.02 | 2.77 × 10−11 | 32 | ||||
All miRs that were differentially expressed in the pairwise DESeq2 analysis of pilot data (Figure 3B) are shown. For each miR, data are given for the pilot data analysis (green) as well as in the large cohort, if it was detected as DE in the paired large cohort (blue). miRs are ordered based on log2 fold change, adjusted P value, and mean raw counts supporting the miRNA species. For miRs significantly decreased in blocked libraries, sequence similarity to a target heme miR is reported (see Figure 4C for sequences).
CPM, count per million; DE, differential expression; miR, microRNA.