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Table 3 miRNA-mRNA Interrelation Involving Cytokine Immune Response Genes for 4-12 and 12-24 hours. Immune gene specific mirTarRnaSeq p-value significant predictions (adjusted p < 0.05) with above 169 miRanda binding prediction for part 2 (miRNA-mRNA correlation) with mRNA differentially significantly differentially expressed. Fold change (FC) adjusted p value (padj) are from DESeq2 predictions. Interactions with at least mRNA padj significance are shown. Immune_pathway prediction is through reactome pathway enrichment analysis. mirTarRnaSeq provides the option to choose the type of miRNA-mRNA relationship as demonstrated by Type_Putative_miRNA Regulation. Target scan CSP represents context score percentile (between 50 and 100, where 100 is the highest score possible)

From: mirTarRnaSeq: An R/Bioconductor Statistical Package for miRNA-mRNA Target Identification and Interaction Analysis

Symbol miRNA log2FC_mRNA padj_mRNA log2FC_miRNA padj_miRNA Type_Putative_miRNA Regulation TargetScan CSP Time Point
GBP4 hsa-miR-224-5p −6.875a 0 −0.628a 0.09 Coregulation (increase) 62 4-24
IFNAR1 hsa-miR − 4726-5p 0.414a 0.0915 5.17 0.28 Coregulation (increase) 72 4-24
IL10RA hsa-miR-940 −4.67a 7.96E-17 1.119 0.41 Inverse Regulation 84 4-24
IL10RA hsa-miR-548d-3p -4.67a 7.96E-17 1.08 0.99 Inverse Regulation 77 4-24
IST1 hsa-miR-4726-5p −0.306a 0.0478 5.17 0.18 Inverse Regulation 89 4-24
ZC3HAV1 hsa-let-7i-3p −4.34 0 0.45a 0.06 Inverse Regulation 81 4-24
NLRP3 hsa-miR-1226-5p −2.82 0.02 0.79 0.99 Inverse Regulation 47 4-24
RBPJL hsa-miR-1180-5p −6.8 0.07E-2 1.08 0.41 Inverse Regulation 71 4-24
TNFSF13B hsa-miR-30d-3p −5.96a 8.15E-20 −0.41 0.39 Coregulation (reduction) 99 4-24
CD38 hsa-miR-548o-3p −5.08 2.84E-07 0.03 0.99 Inverse Regulation 80 4-24
CD38 hsa-miR-3173-3p −5.08 2.84E−07 -0.69a 0.55 Coregulation (reduction) 98 4-24
CD38 hsa-miR-939-5p −5.08 2.84E-07 0.82a 0.99 Inverse Regulation 88 4-24
APO3 hsa-miR-6735 − 5p -5.41a 3.86E-44 −1.12a 0.99 Coregulation (reduction) 81 4-24
ZC3HAV1 hsa-miR-589-3p −4.34 0 0.38a 0.99 Inverse Regulation 30 4-24
HLA-DOB hsa-miR-6886-3p −6.69 8.95E-16 0.79 0.99 Inverse Regulation 48 4-24
CD40 hsa-miR-873-3p −2.77 7.19E-22 0.96 0.99 Inverse Regulation 73 4-24
CSF1 hsa-miR-6763-5p −3.85 5.42E−42 0.16 0.99 Inverse Regulation 76 4-24
TRAF1 hsa-miR-3605-5p -4.92a 2.19E-16 −0.47 0.99 Coregulation (reduction) 39 4-24
LIF hsa-miR-4726-5p −0.22 0.1 5.17 0.27 Inverse Regulation 68 4-24
NFKBIA hsa-miR − 378a-5p -3.95a 5.16E-251 0.3 0.99 Inverse Regulation 98 4-24
IFIT2 hsa-miR-4436b-3p −7.01a 0 1.06 0.51 Inverse Regulation 84 4-24
CXCL1 hsa-miR-4640-3p −4.14 8.34E-150 0.26 0.99 Inverse Regulation 61 4-24
HLA-E hsa-miR-6734-5p −1.21 0 3.22 0.28 Inverse Regulation 94 4-12
IFI44L hsa-miR-1262 −2.46 8.05E-63 0.74 0.6 Inverse Regulation 79 4-12
IFI44L hsa-miR-330-5p −2.46 8.05E-63 −0.17a 0.6 Coregulation (reduction) 57 4-12
NFKBIA hsa-miR-378a-5p −3.16 2.27E-217 0.1 0.48 Inverse Regulation 98 4-12
NLRC5 hsa-miR − 331 − 3p -3.95a 4.14E-98 0.27a 0.24 Inverse Regulation 58 4-12
OAS1 hsa-miR-423-5p -3.13a 3.10E253 0.18a 0.01 Inverse Regulation 98 4-12
PML hsa-miR-7845-5p −2.6 2.06E-85 3.22 0.28 Inverse Regulation 65 4-12
TAP2 hsa-miR-7113-3p −1.66 1.22E-55 2.44 0.51 Inverse Regulation 89 4-12
TRIM22 hsa-miR-199a/b-3p −4.97 3.47E-269 1.54 0.36 Inverse Regulation 73/93 4-12
TRIM22 hsa-miR-3617 −4.97 3.47E-269 0.79 0.81 Inverse Regulation 94 4-12
TRIM5 hsa-miR-30b-3p −2.45 1.62E-82 0.50 0.19 Inverse Regulation 86 4-12
LGALS9 hsa-miR-483-3p 1.027 5.75E-17 4.26a 8.36E-10 Coregulation (increase) 91 12-24
IL7R hsa-miR-6747-3p 3.38a 1.05E-06 0.19a 0.99 Coregulation (increase) 98 12-24
  1. aIndicates mRNA/miRNA that is also differentially expressed in blood from patients with COVID-19. ​