Table 5

The miRNAs significantly up or down regulated in the necrotic tissue, ordered by the fold change (FC)
Annotation Annotation coordinates Normalized read counts log2(FC) p-value
Necrotic Unaffected
miR-223(Q) chrX:51247504–51247526:- 10,712.16 367.80 −4.86 2.38E-10
miR-d12 chr17:37143883–37144004:+ 28.35 1.80 −3.97 2.65E-05
mir-451(Q) chr12:42820765–42820830:- 49,029.44 3,944.06 −3.64 5.16E-07
mir-582 chr16:36589520–36589618:+ 193.02 25.64 −2.91 6.40E-05
mir-7 chr1:200316408–200316468:- 708.65 111.38 −2.67 1.37E-04
mir-144(Q) chr12:42820909–42820993:- 8,968.19 1,426.54 −2.65 1.34E-04
mir-146a(Q) chr16:60604389–60604467:+ 3,486.58 635.24 −2.46 3.68E-04
mir-15b chr13:78787510–78787608:+ 1,150.04 278.66 −2.05 2.70E-03
mir-19a chr11:60972740–60972822:+ 114.73 28.65 −2.00 5.07E-03
mir-142(Q) chr12:32630402–32630482:- 11,700.22 2,961.25 −1.98 3.43E-03
miR-d1 chr2:6684268–6684379:- 31.05 8.21 −1.92 1.83E-02
mir-132 chr12:45599471–45599572:- 82.34 25.04 −1.72 1.70E-02
mir-222 chrX:40478833–40478913:- 134.98 42.87 −1.65 1.77E-02
mir-221 chrX:40478093–40478163:- 827.44 271.44 −1.61 1.71E-02
miR-d5(Q) chr5:4391269–4391380:- 10,960.52 3,887.77 −1.50 2.51E-02
mir-505 chrX:112590811–112590891:+ 62.09 22.04 −1.49 3.84E-02
mir-128-1 chr15:14550873–14550955:- 107.99 40.47 −1.42 4.40E-02
mir-542 chrX:108481538–108481618:- 715.40 1,961.41 1.46 2.97E-02
mir-10a chr12:22389423–22389503:- 8,433.66 26,108.75 1.63 1.50E-02
mir-30c-2 chr1:53819905–53819985:- 80.99 257.42 1.67 1.63E-02
mir-181a-1 chr10:22839351–22839455:- 37.79 122.60 1.70 1.90E-02
mir-138a chr13:23336889–23336951:+ 82.34 272.45 1.73 1.31E-02
mir-497 chr12:49575593–49575673:+ 51.29 181.10 1.82 1.03E-02
mir-126(Q) chr1:294113068–294113141:+ 15,131.46 54,694.16 1.85 5.98E-03
mir-450b chrX:108480528–108480608:- 66.14 248.61 1.91 6.66E-03
mir-100 chr9:47702720–47702800:- 527.78 2,599.26 2.30 8.24E-04
mir-181b-2 chr1:280335867–280335953:+ 2.70 17.03 2.66 2.02E-02
mir-450a chrX:108480687–108480793:- 0.00 13.62 Inf. 1.14E-03
mir-326 chr9:9132229–9132320:- 0.00 5.01 Inf. 4.00E-02

The reads shown in the table are normalized to counts per million calculated by the TMM normalized sample size, the log2 of the fold change (positive for down regulation in the necrotic tissue) and the p-values are determined by the exact-test. A p-value cutoff of 0.05 was applied. The miRNAs marked with (Q) were chosen for RT-qPCR.

Podolska et al.

Podolska et al. BMC Genomics 2012 13:459   doi:10.1186/1471-2164-13-459

Open Data