Research Article

From Oxidative Stress Damage to Pathways, Networks, and Autophagy via MicroRNAs

Table 3

miRNAs predicted to be involved in oxidative stress responses. Identification of miRNAs predicted to simultaneously target the genes identified in Table 1: ZNF618 (114 elements), SH3PXD2A (135 elements), TNRC6B (329 elements), CBL (740 elements), CPEB3 (178 elements), PPARA (933 elements), CLCN5 (167 elements), CDC14B (64 elements), LIFR (553 elements), KCNA1 (549 elements), USP31 (93 elements), tcag7.1228 (210 elements), and NFIB (281 elements). Shown are miRNAs (column 1) common to ≥9 of the 13 gene targets with the corresponding annotation. We found one miRNA (hsa-miR-9) common to all 13 gene targets. The database used for this analysis was TargetScan [13]. The miRNAs marked in italics have already been described to be involved in oxidative stress response.

Common miRNAsTarget genes

hsa-miR-9CBL; CPEB3; PPARA; CLCN5; CDC14B; LIFR; KCNA1; USP31; ZNF618; tcag7.1228; NFIB; SH3PXD2A; TNRC6B
hsa-miR-548c-3pCBL; CPEB3; PPARA; CDC14B; LIFR; KCNA1; USP31; ZNF618; tcag7.1228; NFIB; SH3PXD2A; TNRC6B
hsa-miR-128
hsa-miR-144
hsa-miR-548n
CBL; CPEB3; PPARA; CLCN5; CDC14B; LIFR; KCNA1; ZNF618; tcag7.1228; NFIB; TNRC6B
CBL; CPEB3; PPARA; CDC14B; LIFR; KCNA1; USP31; ZNF618; tcag7.1228; SH3PXD2A; TNRC6B
CPEB3; PPARA; CLCN5; CDC14B; LIFR; KCNA1; USP31; ZNF618; NFIB; SH3PXD2A; TNRC6B
hsa-miR-655
hsa-miR-548p
hsa-miR-101
hsa-miR-29a/b/c
CBL; CPEB3; LIFR; KCNA1; USP31; ZNF618; tcag7.1228; NFIB; SH3PXD2A; TNRC6B
CBL; CPEB3; PPARA; LIFR; KCNA1; USP31; ZNF618; tcag7.1228; NFIB; TNRC6B
CBL; CPEB3; PPARA; LIFR; KCNA1; ZNF618; tcag7.1228; NFIB; SH3PXD2A; TNRC6B
CBL; CPEB3; PPARA; CLCN5; LIFR; ZNF618; tcag7.1228; NFIB; SH3PXD2A; TNRC6B
hsa-miR-195
hsa-miR-16
hsa-miR-424
hsa-miR-15a/b
hsa-miR-497
hsa-miR-23a/b
hsa-miR-27a/b
hsa-miR-519a/b-3p/c-3p
hsa-miR-106a/b
hsa-miR-17
hsa-miR-20a/b
hsa-miR-93
hsa-miR-590-3p
hsa-miR-124
hsa-miR-506
hsa-miR-513a-3p
hsa-miR-429
hsa-miR-200b/c
CBL; CPEB3; PPARA; CLCN5; CDC14B; KCNA1; USP31; tcag7.1228; TNRC6B
CBL; CPEB3; PPARA; CLCN5; CDC14B; KCNA1; USP31; tcag7.1228; TNRC6B
CBL; CPEB3; PPARA; CLCN5; CDC14B; KCNA1; USP31; tcag7.1228; TNRC6B
CBL; CPEB3; PPARA; CLCN5; CDC14B; KCNA1; USP31; tcag7.1228; TNRC6B
CBL; CPEB3; PPARA; CLCN5; CDC14B; KCNA1; USP31; tcag7.1228; TNRC6B
CBL; PPARA; LIFR; KCNA1; USP31; tcag7.1228; NFIB; SH3PXD2A; TNRC6B
CPEB3; PPARA; CLCN5; CDC14B; LIFR; KCNA1; USP31; NFIB; TNRC6B
CPEB3; PPARA; KCNA1; USP31; ZNF618; tcag7.1228; NFIB; SH3PXD2A; TNRC6B
CPEB3; PPARA; LIFR; KCNA1; USP31; ZNF618; NFIB; SH3PXD2A; TNRC6B
CPEB3; PPARA; LIFR; KCNA1; USP31; ZNF618; NFIB; SH3PXD2A; TNRC6B
CPEB3; PPARA; LIFR; KCNA1; USP31; ZNF618; NFIB; SH3PXD2A; TNRC6B
CPEB3; PPARA; LIFR; KCNA1; USP31; ZNF618; NFIB; SH3PXD2A; TNRC6B
PPARA; LIFR; KCNA1; USP31; ZNF618; tcag7.1228; NFIB; SH3PXD2A; TNRC6B
CBL; PPARA; CDC14B; KCNA1; ZNF618; tcag7.1228; NFIB; SH3PXD2A; TNRC6B
CBL; PPARA; CDC14B; KCNA1; ZNF618; tcag7.1228; NFIB; SH3PXD2A; TNRC6B
CBL; PPARA; LIFR; KCNA1; USP31; ZNF618; tcag7.1228; SH3PXD2A; TNRC6B
CBL; CDC14B; LIFR; KCNA1; USP31; tcag7.1228; NFIB; SH3PXD2A; TNRC6B
CBL; PPARA; CDC14B; LIFR; KCNA1; USP31; tcag7.1228; NFIB; SH3PXD2A

Note: see Supplementary Table 5 for this table in Excel format, and see Supplementary Table 6 for a full list of miRNAs that target ≥2 of the 13 gene targets.