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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-139-5p CASP1 -0.7 0 1.75 0 miRanda -0.23 1.0E-5 NA
2 hsa-miR-361-5p CASP1 0.05 0.38293 1.75 0 miRanda -0.32 0.01762 NA
3 hsa-miR-429 CASP1 -2.17 0 1.75 0 miRanda -0.33 0 NA
NumGOOverlapSizeP ValueAdj. P Value
1 CELL DEATH 17 1001 2e-10 9.306e-07
2 RESPONSE TO ENDOGENOUS STIMULUS 16 1450 3.381e-07 0.0006429
3 REGULATION OF CELL DEATH 16 1472 4.145e-07 0.0006429
4 CELLULAR RESPONSE TO ORGANIC SUBSTANCE 17 1848 1.685e-06 0.00112
5 RESPONSE TO OXYGEN CONTAINING COMPOUND 15 1381 1.07e-06 0.00112
6 RESPONSE TO EXTRACELLULAR STIMULUS 9 441 1.52e-06 0.00112
7 CELLULAR CHEMICAL HOMEOSTASIS 10 570 1.458e-06 0.00112
8 INTRINSIC APOPTOTIC SIGNALING PATHWAY 6 152 2.371e-06 0.001379
9 REGULATION OF CELLULAR COMPONENT BIOGENESIS 11 767 2.877e-06 0.001487
10 REGULATION OF PROTEIN LOCALIZATION 12 950 3.513e-06 0.001635
11 REGULATION OF PROTEIN COMPLEX ASSEMBLY 8 375 4.465e-06 0.001889
12 RESPONSE TO EXTERNAL STIMULUS 16 1821 6.843e-06 0.001904
13 AUTOPHAGY 8 394 6.415e-06 0.001904
14 REGULATION OF TRANSPORT 16 1804 6.066e-06 0.001904
15 NEURON DEATH 4 47 6.168e-06 0.001904
16 NEUROTROPHIN TRK RECEPTOR SIGNALING PATHWAY 3 15 6.956e-06 0.001904
17 CELLULAR HOMEOSTASIS 10 676 6.645e-06 0.001904
18 APOPTOTIC SIGNALING PATHWAY 7 289 8.22e-06 0.002125
19 POSITIVE REGULATION OF RESPONSE TO STIMULUS 16 1929 1.425e-05 0.003385
20 POSITIVE REGULATION OF PROTEIN METABOLIC PROCESS 14 1492 1.455e-05 0.003385
21 REGULATION OF HOMEOSTATIC PROCESS 8 447 1.603e-05 0.003391
22 RESPONSE TO ORGANIC CYCLIC COMPOUND 11 917 1.565e-05 0.003391
23 REGULATION OF VESICLE MEDIATED TRANSPORT 8 462 2.032e-05 0.003783
24 POSITIVE REGULATION OF CELL DEATH 9 605 1.954e-05 0.003783
25 POSITIVE REGULATION OF TRANSPORT 11 936 1.894e-05 0.003783
26 POSITIVE REGULATION OF CELLULAR COMPONENT ORGANIZATION 12 1152 2.465e-05 0.004412
27 POSITIVE REGULATION OF MOLECULAR FUNCTION 15 1791 2.571e-05 0.00443
28 NEUROTROPHIN SIGNALING PATHWAY 3 23 2.669e-05 0.004435
29 CELLULAR RESPONSE TO OXYGEN CONTAINING COMPOUND 10 799 2.826e-05 0.004535
30 RESPONSE TO OXIDATIVE STRESS 7 352 2.932e-05 0.004548
31 INTRINSIC APOPTOTIC SIGNALING PATHWAY IN RESPONSE TO DNA DAMAGE 4 71 3.212e-05 0.004821
32 NEUROGENESIS 13 1402 3.598e-05 0.005231
33 CELLULAR RESPONSE TO CARBOHYDRATE STIMULUS 4 74 3.782e-05 0.005333
34 POSITIVE REGULATION OF INTRACELLULAR TRANSPORT 7 370 4.027e-05 0.005353
35 CELLULAR GLUCOSE HOMEOSTASIS 4 75 3.988e-05 0.005353
36 POSITIVE REGULATION OF ESTABLISHMENT OF PROTEIN LOCALIZATION 8 514 4.342e-05 0.005612
37 RESPONSE TO STARVATION 5 154 4.477e-05 0.005631
38 ERBB SIGNALING PATHWAY 4 79 4.893e-05 0.005991
39 CHEMICAL HOMEOSTASIS 10 874 6.036e-05 0.007157
40 POSITIVE REGULATION OF INTRACELLULAR SIGNAL TRANSDUCTION 10 876 6.153e-05 0.007157
41 REGULATION OF CELLULAR LOCALIZATION 12 1277 6.749e-05 0.007659
42 RESPONSE TO HORMONE 10 893 7.225e-05 0.008004
43 REGULATION OF CATABOLIC PROCESS 9 731 8.507e-05 0.009205
44 POSITIVE REGULATION OF CELL COMMUNICATION 13 1532 8.986e-05 0.009503
45 NEURON APOPTOTIC PROCESS 3 35 9.652e-05 0.009876
46 REGULATION OF TRANSMEMBRANE TRANSPORT 7 426 9.763e-05 0.009876
NumGOOverlapSizeP ValueAdj. P Value
1 PROTEIN DOMAIN SPECIFIC BINDING 10 624 3.276e-06 0.003043
2 PROTEIN C TERMINUS BINDING 6 186 7.592e-06 0.003527
3 ENZYME BINDING 15 1737 1.788e-05 0.005537
NumGOOverlapSizeP ValueAdj. P Value
1 MITOCHONDRION 17 1633 2.957e-07 0.0001727
2 OUTER MEMBRANE 6 190 8.574e-06 0.002504
3 ENVELOPE 12 1090 1.421e-05 0.002766
4 VACUOLE 12 1180 3.125e-05 0.003041
5 LEADING EDGE MEMBRANE 5 134 2.298e-05 0.003041
6 CELL LEADING EDGE 7 350 2.827e-05 0.003041
7 MITOCHONDRIAL ENVELOPE 9 691 5.521e-05 0.004606
8 MITOCHONDRIAL PART 10 953 0.0001238 0.009039

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 AMPK_signaling_pathway_hsa04152 6 121 6.241e-07 3.245e-05
2 Apoptosis_hsa04210 5 138 2.647e-05 0.0006883
3 ErbB_signaling_pathway_hsa04012 4 85 6.52e-05 0.00113
4 Autophagy_animal_hsa04140 4 128 0.0003169 0.00412
5 Apelin_signaling_pathway_hsa04371 4 137 0.0004102 0.004267
6 mTOR_signaling_pathway_hsa04150 4 151 0.0005922 0.004534
7 Mitophagy_animal_hsa04137 3 65 0.0006104 0.004534
8 MAPK_signaling_pathway_hsa04010 5 295 0.0009101 0.005916
9 Focal_adhesion_hsa04510 4 199 0.001649 0.009528
10 Apoptosis_multiple_species_hsa04215 2 33 0.0032 0.01664
11 FoxO_signaling_pathway_hsa04068 3 132 0.004644 0.02196
12 Tight_junction_hsa04530 3 170 0.00932 0.03977
13 VEGF_signaling_pathway_hsa04370 2 59 0.009942 0.03977
14 PI3K_Akt_signaling_pathway_hsa04151 4 352 0.01231 0.04522
15 p53_signaling_pathway_hsa04115 2 68 0.01305 0.04522
16 cAMP_signaling_pathway_hsa04024 3 198 0.01405 0.04566
17 Rap1_signaling_pathway_hsa04015 3 206 0.01561 0.04774
18 Ras_signaling_pathway_hsa04014 3 232 0.02133 0.06161
19 HIF_1_signaling_pathway_hsa04066 2 100 0.02692 0.07368
20 Sphingolipid_signaling_pathway_hsa04071 2 118 0.03647 0.09483
21 Signaling_pathways_regulating_pluripotency_of_stem_cells_hsa04550 2 139 0.049 0.1209
22 Phospholipase_D_signaling_pathway_hsa04072 2 146 0.05348 0.1209
23 Wnt_signaling_pathway_hsa04310 2 146 0.05348 0.1209
24 Cellular_senescence_hsa04218 2 160 0.06285 0.1264
25 Jak_STAT_signaling_pathway_hsa04630 2 162 0.06423 0.1264
26 cGMP_PKG_signaling_pathway_hsa04022 2 163 0.06493 0.1264
27 Necroptosis_hsa04217 2 164 0.06563 0.1264
28 Regulation_of_actin_cytoskeleton_hsa04810 2 208 0.09859 0.1709

Quest ID: 9311d2121b4e3eeb914e14d820b44ac6