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This regulatory network was inferred from the input dataset. The miRNAs and mRNAs are presented as round and rectangle nodes respectively. The numerical value popped up upon mouse over the gene node is the log2 transformed fold-change of the gene expression between the two groups. All of the nodes are clickable, and the detailed information of the miRNAs/mRNAs and related cancer pathway will be displayed in another window. The edges between nodes are supported by both interactions (predicted or experimentally verified) and correlations learnt from cancer dataset. The numerical value popped up upon mouse over the edge is the correlation beat value (effect size) between the two nodes. The experimental evidences of the edges reported in previous cancer studies are highlighted by red/orange color. All of these information can be accessed by the "mouse-over" action. This network shows a full map of the miRNA-mRNA regulation of the input gene list(s), and the hub miRNAs (with the high network degree/betweenness centrality) would be the potential cancer drivers or tumor suppressors. The full result table can be accessed in the "Regulations" tab.

"miRNACancerMAP" is also a network visualization tool for users to draw their regulatory network by personal customization. Users can set the complexity of the network by limiting the number of nodes or edges. And the color of the nodes can be defined by different categories of the mRNAs and miRNAs, such as Gene-Ontology, pathway, and expression status. Users can also select to use network degree or network betweenness centrality to define the node size. And edges can be black or colored by the correlation. Purple edge means negative correlation (mostly found between miRNA and mRNA), and blue edge means positive correlation (found in PPI or miRNA-miRNA sponge effect). We can also add the protein-protein interactions (PPI) into the network. This result will show the cluster of genes regulated by some specific miRNAs. Additionally, miRNA-miRNA edges can be added by the "miRNA sponge" button, presenting some clusters of miRNAs that have the interactions via sponge effect.

miRNA-gene regulations

(Download full result)

Num microRNA           Gene miRNA log2FC miRNA pvalue Gene log2FC Gene pvalue Interaction Correlation beta Correlation P-value PMID Reported in cancer studies
1 hsa-miR-223-3p ABI2 1.09 0.00012 0.18 0.14787 MirTarget -0.15 0 NA
2 hsa-miR-223-3p ACVR2A 1.09 0.00012 -0.41 0.00039 MirTarget -0.14 0 NA
3 hsa-miR-223-3p ANKRD40 1.09 0.00012 -0.04 0.6717 MirTarget -0.11 0 NA
4 hsa-miR-223-3p ANTXR1 1.09 0.00012 0.82 0.00014 mirMAP -0.13 0.00545 NA
5 hsa-miR-223-3p AR 1.09 0.00012 -1.55 0 mirMAP -0.5 0 NA
6 hsa-miR-223-3p ARMCX1 1.09 0.00012 -1.28 0 MirTarget -0.35 0 NA
7 hsa-miR-223-3p BRMS1L 1.09 0.00012 -0.02 0.82317 MirTarget -0.11 0 NA
8 hsa-miR-223-3p CCKBR 1.09 0.00012 -5.31 0 MirTarget -0.57 8.0E-5 NA
9 hsa-miR-223-3p CREBRF 1.09 0.00012 -0.37 0.00727 MirTarget -0.21 0 NA
10 hsa-miR-223-3p CXXC4 1.09 0.00012 -0.43 0.21055 MirTarget -0.41 0 NA
11 hsa-miR-223-3p CYBRD1 1.09 0.00012 -1.57 0 MirTarget -0.37 0 NA
12 hsa-miR-223-3p DIRAS1 1.09 0.00012 -2.52 0 mirMAP -0.5 0 NA
13 hsa-miR-223-3p EBF2 1.09 0.00012 1.63 0 MirTarget -0.21 0.00601 NA
14 hsa-miR-223-3p EPHA3 1.09 0.00012 0.18 0.53588 MirTarget -0.35 0 NA
15 hsa-miR-223-3p FAM120C 1.09 0.00012 0.17 0.2632 MirTarget -0.13 4.0E-5 NA
16 hsa-miR-223-3p FAM188A 1.09 0.00012 -0.44 0.00018 MirTarget -0.12 0 NA
17 hsa-miR-223-3p FAM212B 1.09 0.00012 -1 0 mirMAP -0.17 5.0E-5 NA
18 hsa-miR-223-3p FBXO8 1.09 0.00012 -0.73 0 MirTarget -0.11 0 NA
19 hsa-miR-223-3p FGF2 1.09 0.00012 -1.03 2.0E-5 MirTarget -0.3 0 NA
20 hsa-miR-223-3p GABRB2 1.09 0.00012 -1.84 0.00029 mirMAP -0.42 0.00014 NA
21 hsa-miR-223-3p HCFC2 1.09 0.00012 -0.72 0 MirTarget -0.2 0 NA
22 hsa-miR-223-3p IDS 1.09 0.00012 -0.1 0.45224 mirMAP -0.14 0 NA
23 hsa-miR-223-3p IGFBP5 1.09 0.00012 -0.81 0.00105 mirMAP -0.16 0.00301 NA
24 hsa-miR-223-3p IL6ST 1.09 0.00012 -0.4 0.00676 MirTarget -0.14 0 NA
25 hsa-miR-223-3p INPP5B 1.09 0.00012 -0.07 0.55581 MirTarget -0.12 0 NA
26 hsa-miR-223-3p ITGA9 1.09 0.00012 -0.83 0.00174 mirMAP -0.3 0 24333181 Our aim was to investigate miR-223 regulation in HCC miR-223 and integrin αV dysregulation were verified in 57 HCC specimens; Enhanced miR-223 expression had a negative effect on integrin αV-mediated cell migration; Further analysis demonstrated that integrin αV is negatively regulated by miR-223
27 hsa-miR-223-3p KCND3 1.09 0.00012 -1.25 9.0E-5 mirMAP -0.18 0.01145 NA
28 hsa-miR-223-3p KIAA1456 1.09 0.00012 -0.82 0.00346 mirMAP -0.27 1.0E-5 NA
29 hsa-miR-223-3p KIAA1614 1.09 0.00012 -0.67 0.00088 mirMAP -0.24 0 NA
30 hsa-miR-223-3p KLF12 1.09 0.00012 -0.39 0.08931 mirMAP -0.2 4.0E-5 NA
31 hsa-miR-223-3p LRIG1 1.09 0.00012 -0.54 0.00588 MirTarget -0.24 0 NA
32 hsa-miR-223-3p MAPK4 1.09 0.00012 -3.2 0 mirMAP -0.99 0 NA
33 hsa-miR-223-3p MDGA1 1.09 0.00012 -0.7 0.00274 mirMAP -0.12 0.01661 NA
34 hsa-miR-223-3p MEF2C 1.09 0.00012 -0.5 0.01448 miRNAWalker2 validate; miRTarBase; MirTarget -0.13 0.00232 NA
35 hsa-miR-223-3p MMP16 1.09 0.00012 0.34 0.22287 mirMAP -0.19 0.00141 NA
36 hsa-miR-223-3p MTSS1 1.09 0.00012 -0.81 0.00035 MirTarget -0.23 0 NA
37 hsa-miR-223-3p NDNF 1.09 0.00012 -1.51 5.0E-5 MirTarget -0.44 0 NA
38 hsa-miR-223-3p NFIA 1.09 0.00012 -0.55 0.00406 miRNAWalker2 validate; miRTarBase; MirTarget -0.29 0 NA
39 hsa-miR-223-3p NFIB 1.09 0.00012 0.02 0.90795 MirTarget -0.12 0.00464 NA
40 hsa-miR-223-3p NFIX 1.09 0.00012 -0.63 0.00019 miRNAWalker2 validate; miRTarBase -0.15 2.0E-5 NA
41 hsa-miR-223-3p NIPAL3 1.09 0.00012 -0.45 2.0E-5 MirTarget -0.11 0 NA
42 hsa-miR-223-3p NPTXR 1.09 0.00012 -1 0.00368 mirMAP -0.46 0 NA
43 hsa-miR-223-3p PTPRT 1.09 0.00012 -0.91 0.03727 mirMAP -0.29 0.00226 NA
44 hsa-miR-223-3p RBM20 1.09 0.00012 -1.96 0 MirTarget -0.54 0 NA
45 hsa-miR-223-3p RERG 1.09 0.00012 -1.39 5.0E-5 MirTarget -0.5 0 NA
46 hsa-miR-223-3p RHOB 1.09 0.00012 -1.05 0 miRNAWalker2 validate; miRTarBase; MirTarget -0.22 0 NA
47 hsa-miR-223-3p RILPL1 1.09 0.00012 -0.16 0.27324 MirTarget -0.15 0 NA
48 hsa-miR-223-3p RORA 1.09 0.00012 -0.89 0 mirMAP -0.24 0 NA
49 hsa-miR-223-3p SACS 1.09 0.00012 0.34 0.11689 MirTarget -0.12 0.00828 NA
50 hsa-miR-223-3p SCN2A 1.09 0.00012 0.32 0.4775 MirTarget -0.28 0.00395 NA
51 hsa-miR-223-3p SCN2B 1.09 0.00012 -2.22 0 mirMAP -0.7 0 NA
52 hsa-miR-223-3p SCN3A 1.09 0.00012 -1.5 0 MirTarget -0.31 0 NA
53 hsa-miR-223-3p SDK2 1.09 0.00012 -0.58 0.06046 mirMAP -0.18 0.00613 NA
54 hsa-miR-223-3p SEPT10 1.09 0.00012 -0.29 0.01698 MirTarget -0.11 2.0E-5 NA
55 hsa-miR-223-3p SLC2A4 1.09 0.00012 -2.42 0 miRNAWalker2 validate; miRTarBase -0.6 0 NA
56 hsa-miR-223-3p SOGA1 1.09 0.00012 0.16 0.46914 mirMAP -0.18 0.00024 NA
57 hsa-miR-223-3p SSBP2 1.09 0.00012 -1.58 0 MirTarget -0.31 0 NA
58 hsa-miR-223-3p SV2B 1.09 0.00012 -0.29 0.36339 MirTarget -0.2 0.00317 NA
59 hsa-miR-223-3p TBC1D17 1.09 0.00012 -0.54 0 MirTarget -0.12 0 NA
60 hsa-miR-223-3p TEAD1 1.09 0.00012 -0.18 0.334 mirMAP -0.25 0 NA
61 hsa-miR-223-3p TGFBR3 1.09 0.00012 -1.17 1.0E-5 MirTarget -0.32 0 NA
62 hsa-miR-223-3p TMEM47 1.09 0.00012 -0.86 0.00028 MirTarget -0.32 0 NA
63 hsa-miR-223-3p TMOD2 1.09 0.00012 -0.64 0.00111 mirMAP -0.23 0 NA
64 hsa-miR-223-3p TOX 1.09 0.00012 -1.55 0 MirTarget -0.25 0.0001 24304814 In addition we showed that the 3'-UTR of TOX mRNA was a genuine target of miR-223
65 hsa-miR-223-3p TRIL 1.09 0.00012 -0.26 0.19936 MirTarget -0.15 0.00054 NA
66 hsa-miR-223-3p ULK2 1.09 0.00012 -0.51 0.0072 MirTarget -0.19 0 NA
67 hsa-miR-223-3p YPEL1 1.09 0.00012 -0.19 0.09561 MirTarget -0.13 0 NA
68 hsa-miR-223-3p ZFHX3 1.09 0.00012 0.39 0.01363 MirTarget -0.2 0 NA
69 hsa-miR-223-3p ZIC1 1.09 0.00012 -0 0.99624 mirMAP -0.37 0.00326 NA
70 hsa-miR-223-3p ZNF286B 1.09 0.00012 0.52 0.00012 mirMAP -0.11 0.00023 NA
71 hsa-miR-223-3p ZNF365 1.09 0.00012 0.2 0.5705 MirTarget -0.4 0 NA
72 hsa-miR-223-3p ZNF772 1.09 0.00012 -0.01 0.95935 MirTarget -0.17 0.00186 NA

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
NumGOOverlapSizeP ValueAdj. P Value
NumGOOverlapSizeP ValueAdj. P Value
1 SODIUM CHANNEL COMPLEX 3 17 2.934e-05 0.008567
2 VOLTAGE GATED SODIUM CHANNEL COMPLEX 3 14 1.583e-05 0.008567

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 hsa04512_ECM.receptor_interaction 2 85 0.03766 1
2 hsa04810_Regulation_of_actin_cytoskeleton 3 214 0.04205 1
3 hsa04010_MAPK_signaling_pathway 2 268 0.2512 1
4 hsa04151_PI3K_AKT_signaling_pathway 2 351 0.3612 1

Quest ID: 4c0237350dbded5d512995f535856c80