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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-140-5p RYR3 0.13 0.45796 -1.87 0 miRanda -0.87 0 NA
2 hsa-miR-142-5p RYR3 1.08 0.00013 -1.87 0 PITA -0.68 0 NA
3 hsa-miR-194-3p RYR3 1.91 0 -1.87 0 miRNATAP -0.46 0 NA
4 hsa-miR-26b-5p RYR3 -0.5 0.01181 -1.87 0 miRNAWalker2 validate -0.75 0 NA
5 hsa-miR-30d-3p RYR3 0.06 0.70811 -1.87 0 miRNATAP -0.66 0 NA
6 hsa-miR-32-5p RYR3 0.43 0.04021 -1.87 0 miRNATAP -1.04 0 NA
7 hsa-miR-320a RYR3 0.45 0.00893 -1.87 0 miRanda -0.57 0 NA
8 hsa-miR-320b RYR3 1.22 0 -1.87 0 miRanda -0.77 0 NA
9 hsa-miR-576-5p RYR3 0.87 5.0E-5 -1.87 0 PITA -1.03 0 NA
10 hsa-miR-590-3p RYR3 0.86 0.00013 -1.87 0 miRanda -1.05 0 NA
11 hsa-miR-92a-3p RYR3 1.06 0 -1.87 0 miRNATAP -0.96 0 NA
12 hsa-miR-92b-3p RYR3 1.1 0 -1.87 0 miRNATAP -0.61 0 NA

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
1 RESPONSE TO ENDOPLASMIC RETICULUM STRESS 10 233 2.37e-11 1.103e-07
2 PROTEIN FOLDING 9 224 4.776e-10 1.111e-06
3 RESPONSE TO TOPOLOGICALLY INCORRECT PROTEIN 7 163 3.121e-08 4.841e-05
4 CELLULAR RESPONSE TO TOPOLOGICALLY INCORRECT PROTEIN 6 122 1.475e-07 0.0001689
5 CELL REDOX HOMEOSTASIS 5 67 2.178e-07 0.0001689
6 CELLULAR RESPONSE TO ORGANIC SUBSTANCE 16 1848 1.934e-07 0.0001689
7 CELLULAR HOMEOSTASIS 10 676 6.165e-07 0.0004098
8 CELLULAR RESPONSE TO STRESS 14 1565 1.013e-06 0.0005238
9 DIVALENT INORGANIC CATION TRANSPORT 7 268 9.165e-07 0.0005238
10 PROTEIN FOLDING IN ENDOPLASMIC RETICULUM 3 11 1.209e-06 0.0005627
11 AMYLOID PRECURSOR PROTEIN METABOLIC PROCESS 3 12 1.61e-06 0.0006811
12 NOTCH RECEPTOR PROCESSING 3 16 4.076e-06 0.001459
13 RESPONSE TO METAL ION 7 333 3.873e-06 0.001459
14 IRE1 MEDIATED UNFOLDED PROTEIN RESPONSE 4 56 4.673e-06 0.001553
15 CALCIUM ION TRANSPORT 6 223 5.024e-06 0.001558
16 HOMEOSTATIC PROCESS 12 1337 7.319e-06 0.002128
17 CALCIUM ION IMPORT 4 65 8.503e-06 0.002327
18 RESPONSE TO OXYGEN CONTAINING COMPOUND 12 1381 1.018e-05 0.002632
19 MEMBRANE PROTEIN ECTODOMAIN PROTEOLYSIS 3 22 1.112e-05 0.002722
20 ESTABLISHMENT OF LOCALIZATION IN CELL 13 1676 1.338e-05 0.003113
21 CELLULAR RESPONSE TO INORGANIC SUBSTANCE 5 156 1.429e-05 0.003167
22 CALCIUM ION TRANSMEMBRANE TRANSPORT 5 159 1.567e-05 0.003314
23 RESPONSE TO ENDOGENOUS STIMULUS 12 1450 1.667e-05 0.003373
24 VESICLE MEDIATED TRANSPORT 11 1239 2.15e-05 0.004169
25 NEGATIVE REGULATION OF CELL DEVELOPMENT 6 303 2.863e-05 0.005329
26 RESPONSE TO NITROGEN COMPOUND 9 859 3.925e-05 0.007009
27 RESPONSE TO INORGANIC SUBSTANCE 7 479 4.067e-05 0.007009
28 ER NUCLEUS SIGNALING PATHWAY 3 34 4.248e-05 0.007059
29 NEURON APOPTOTIC PROCESS 3 35 4.64e-05 0.007197
30 MEMBRANE PROTEIN PROTEOLYSIS 3 35 4.64e-05 0.007197
31 ENDOCYTOSIS 7 509 5.972e-05 0.008964
NumGOOverlapSizeP ValueAdj. P Value
1 INTRAMOLECULAR OXIDOREDUCTASE ACTIVITY TRANSPOSING S S BONDS 5 22 6.342e-10 5.892e-07
2 INTRAMOLECULAR OXIDOREDUCTASE ACTIVITY 5 53 6.605e-08 3.068e-05
3 ISOMERASE ACTIVITY 6 159 7.05e-07 0.0002183
4 CALCIUM ION BINDING 9 697 7.469e-06 0.001735
5 MICROFILAMENT MOTOR ACTIVITY 3 21 9.614e-06 0.001786
6 DIVALENT INORGANIC CATION TRANSMEMBRANE TRANSPORTER ACTIVITY 5 167 1.986e-05 0.003075
7 CALMODULIN BINDING 5 179 2.772e-05 0.003679
8 GLYCOPROTEIN BINDING 4 101 4.869e-05 0.005654
NumGOOverlapSizeP ValueAdj. P Value
1 ENDOPLASMIC RETICULUM PART 15 1163 2.729e-09 1.029e-06
2 ENDOPLASMIC RETICULUM LUMEN 8 201 5.284e-09 1.029e-06
3 ENDOPLASMIC RETICULUM 17 1631 4.153e-09 1.029e-06
4 NUCLEAR OUTER MEMBRANE ENDOPLASMIC RETICULUM MEMBRANE NETWORK 13 1005 4.086e-08 5.966e-06
5 SMOOTH ENDOPLASMIC RETICULUM 4 33 5.382e-07 6.286e-05
6 ENDOPLASMIC RETICULUM CHAPERONE COMPLEX 3 11 1.209e-06 0.0001177
7 PIGMENT GRANULE 5 103 1.873e-06 0.0001563
8 CELL JUNCTION 11 1151 1.077e-05 0.0006987
9 SARCOPLASM 4 68 1.018e-05 0.0006987
10 ENDOPLASMIC RETICULUM GOLGI INTERMEDIATE COMPARTMENT 4 105 5.668e-05 0.00331

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 Apelin_signaling_pathway_hsa04371 5 137 7.606e-06 0.0003955
2 Notch_signaling_pathway_hsa04330 3 48 0.0001204 0.003131
3 Calcium_signaling_pathway_hsa04020 4 182 0.0004694 0.008137
4 Gap_junction_hsa04540 3 88 0.0007229 0.009398
5 FoxO_signaling_pathway_hsa04068 3 132 0.002323 0.02416
6 Wnt_signaling_pathway_hsa04310 3 146 0.00309 0.02678
7 Jak_STAT_signaling_pathway_hsa04630 3 162 0.004137 0.02736
8 cGMP_PKG_signaling_pathway_hsa04022 3 163 0.004209 0.02736
9 Phosphatidylinositol_signaling_system_hsa04070 2 99 0.01674 0.09674
10 Cell_cycle_hsa04110 2 124 0.02551 0.1327
11 Phospholipase_D_signaling_pathway_hsa04072 2 146 0.03445 0.1511
12 Phagosome_hsa04145 2 152 0.03707 0.1511
13 Hippo_signaling_pathway_hsa04390 2 154 0.03796 0.1511
14 Cellular_senescence_hsa04218 2 160 0.04069 0.1511
15 Tight_junction_hsa04530 2 170 0.04538 0.1573
16 Focal_adhesion_hsa04510 2 199 0.06004 0.1951
17 Rap1_signaling_pathway_hsa04015 2 206 0.0638 0.1951
18 PI3K_Akt_signaling_pathway_hsa04151 2 352 0.1562 0.3706

lncRNA-mediated sponge

(Download full result)

Num lncRNA miRNAs           miRNAs count     Gene Sponge regulatory network lncRNA log2FC lncRNA pvalue Gene log2FC Gene pvalue lncRNA-gene Pearson correlation
1 MIR143HG hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 12 RYR3 Sponge network -0.739 0.0574 -1.866 0 0.801
2 ADAMTS9-AS2 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 12 RYR3 Sponge network -2.452 0 -1.866 0 0.746
3 HAND2-AS1 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 12 RYR3 Sponge network -1.697 0.00889 -1.866 0 0.727
4 SNHG14 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 12 RYR3 Sponge network -1.111 0.0003 -1.866 0 0.721
5 LINC00702 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 12 RYR3 Sponge network -0.737 0.06182 -1.866 0 0.703
6 RP11-166D19.1 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 12 RYR3 Sponge network -0.576 0.10121 -1.866 0 0.676
7 TRAF3IP2-AS1 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-32-5p;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 10 RYR3 Sponge network -0.323 0.01372 -1.866 0 0.669
8 ARHGEF26-AS1 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 12 RYR3 Sponge network -2.46 0 -1.866 0 0.666
9 NR2F1-AS1 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 11 RYR3 Sponge network -0.49 0.04946 -1.866 0 0.633
10 MAGI2-AS3 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 12 RYR3 Sponge network -0.129 0.57177 -1.866 0 0.628
11 FAM66C hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 12 RYR3 Sponge network -0.901 0.00019 -1.866 0 0.561
12 RP11-890B15.3 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p 10 RYR3 Sponge network 0.101 0.60919 -1.866 0 0.557
13 RP11-356J5.12 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 10 RYR3 Sponge network -0.899 6.0E-5 -1.866 0 0.545
14 EMX2OS hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 10 RYR3 Sponge network -0.777 0.1134 -1.866 0 0.531
15 RP5-1198O20.4 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 10 RYR3 Sponge network 0.997 0.00066 -1.866 0 0.514
16 PART1 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 12 RYR3 Sponge network -2.925 0 -1.866 0 0.51
17 TPTEP1 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 12 RYR3 Sponge network -1.216 0 -1.866 0 0.478
18 NDUFA6-AS1 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-26b-5p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p;hsa-miR-92b-3p 10 RYR3 Sponge network -0.355 0.0077 -1.866 0 0.398
19 RP1-151F17.2 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p 10 RYR3 Sponge network 0.222 0.29133 -1.866 0 0.357
20 RP11-67L2.2 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p 11 RYR3 Sponge network 0.72 0.0001 -1.866 0 0.322
21 RP11-597D13.9 hsa-miR-140-5p;hsa-miR-142-5p;hsa-miR-194-3p;hsa-miR-26b-5p;hsa-miR-30d-3p;hsa-miR-32-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-576-5p;hsa-miR-590-3p;hsa-miR-92a-3p 11 RYR3 Sponge network 1.302 7.0E-5 -1.866 0 0.253

Quest ID: 3dda128d75cf1b40f79ee97512dc1f51