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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-122-5p TP53 -1.24 0 -0.16 0.26801 miRNATAP -0.1 7.0E-5 23221562; 22235305 Loss of miR-122 expression in patients with hepatitis B enhances hepatitis B virus replication through cyclin G1-modulated P53 activity.;Surprisingly miR-122 overexpression decreased the sensitivity to the chemotherapy-induced apoptosis via a signaling circuit involving the activation of Akt and inhibition of p53
2 hsa-miR-25-3p TP53 0.63 0 -0.16 0.26801 miRNAWalker2 validate -0.2 0.0048 22431589 The results define miR-25 and -32 as positive regulators of p53 underscoring their role in tumorigenesis in glioblastoma

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
1 CATABOLIC PROCESS 30 1773 3.836e-08 0.0001785
2 SMALL MOLECULE METABOLIC PROCESS 29 1767 1.331e-07 0.0003096
3 CELL DEATH 20 1001 8.803e-07 0.0005482
4 MONOSACCHARIDE CATABOLIC PROCESS 6 59 1.058e-06 0.0005482
5 MONOCARBOXYLIC ACID METABOLIC PROCESS 14 503 1.06e-06 0.0005482
6 RESPONSE TO ENDOGENOUS STIMULUS 25 1450 4.843e-07 0.0005482
7 ORGANIC ACID METABOLIC PROCESS 20 953 4.078e-07 0.0005482
8 RESPONSE TO HORMONE 19 893 6.732e-07 0.0005482
9 OXIDATION REDUCTION PROCESS 19 898 7.321e-07 0.0005482
10 CELLULAR CATABOLIC PROCESS 23 1322 1.307e-06 0.0006079
11 CELL CYCLE ARREST 8 154 2.843e-06 0.001102
12 OXIDOREDUCTION COENZYME METABOLIC PROCESS 7 107 2.647e-06 0.001102
13 CARBOHYDRATE CATABOLIC PROCESS 7 113 3.812e-06 0.001364
14 REGULATION OF LIPID METABOLIC PROCESS 10 282 4.962e-06 0.001649
15 ADP METABOLIC PROCESS 5 47 6.981e-06 0.00203
16 GENERATION OF PRECURSOR METABOLITES AND ENERGY 10 292 6.743e-06 0.00203
17 REGULATION OF CELL DEATH 23 1472 7.902e-06 0.002163
18 REGULATION OF LIPID CATABOLIC PROCESS 5 52 1.156e-05 0.002989
19 PHOSPHATE CONTAINING COMPOUND METABOLIC PROCESS 27 1977 1.327e-05 0.003251
20 NAD METABOLIC PROCESS 5 55 1.527e-05 0.003552
21 COFACTOR METABOLIC PROCESS 10 334 2.161e-05 0.004053
22 SMALL MOLECULE CATABOLIC PROCESS 10 328 1.85e-05 0.004053
23 COENZYME METABOLIC PROCESS 9 265 2.12e-05 0.004053
24 ORGANONITROGEN COMPOUND METABOLIC PROCESS 25 1796 2.178e-05 0.004053
25 REGULATION OF TRANSCRIPTION FROM RNA POLYMERASE II PROMOTER 25 1784 1.944e-05 0.004053
26 NUCLEOTIDE PHOSPHORYLATION 5 61 2.541e-05 0.004543
27 REGULATION OF CELL CYCLE 17 949 2.636e-05 0.004543
28 RESPONSE TO XENOBIOTIC STIMULUS 6 105 3.056e-05 0.004934
29 HORMONE MEDIATED SIGNALING PATHWAY 7 158 3.409e-05 0.004934
30 RESPONSE TO OXYGEN CONTAINING COMPOUND 21 1381 3.142e-05 0.004934
31 NEGATIVE REGULATION OF CELL DEATH 16 872 3.499e-05 0.004934
32 PYRUVATE METABOLIC PROCESS 5 65 3.464e-05 0.004934
33 RIBONUCLEOSIDE DIPHOSPHATE METABOLIC PROCESS 5 64 3.212e-05 0.004934
34 NEGATIVE REGULATION OF CELL CYCLE 11 433 3.756e-05 0.005141
35 REGULATION OF APOPTOTIC SIGNALING PATHWAY 10 363 4.378e-05 0.00582
36 ALDEHYDE CATABOLIC PROCESS 3 13 4.948e-05 0.006241
37 REGULATION OF MEMBRANE PERMEABILITY 5 70 4.963e-05 0.006241
38 NUCLEOBASE CONTAINING SMALL MOLECULE METABOLIC PROCESS 12 535 5.509e-05 0.006745
39 GLUCOSE METABOLIC PROCESS 6 119 6.178e-05 0.00737
40 ATP GENERATION FROM ADP 4 39 7.06e-05 0.008212
41 CELLULAR RESPONSE TO HORMONE STIMULUS 12 552 7.424e-05 0.008426
42 MULTICELLULAR ORGANISMAL MOVEMENT 4 41 8.616e-05 0.00853
43 REGULATION OF CELL GROWTH 10 391 8.132e-05 0.00853
44 RESPONSE TO UV 6 126 8.49e-05 0.00853
45 MUSCULOSKELETAL MOVEMENT 4 41 8.616e-05 0.00853
46 NEGATIVE REGULATION OF TRANSCRIPTION FROM RNA POLYMERASE II PROMOTER 14 740 8.132e-05 0.00853
47 DNA DAMAGE RESPONSE SIGNAL TRANSDUCTION RESULTING IN TRANSCRIPTION 3 15 7.807e-05 0.00853
48 CARBOHYDRATE METABOLIC PROCESS 13 662 0.0001026 0.009884
49 REGULATION OF MITOCHONDRIAL OUTER MEMBRANE PERMEABILIZATION INVOLVED IN APOPTOTIC SIGNALING PATHWAY 4 43 0.0001041 0.009884
NumGOOverlapSizeP ValueAdj. P Value
1 ENZYME BINDING 34 1737 7.399e-11 6.873e-08
2 KINASE BINDING 15 606 1.832e-06 0.0008508
3 PROTEIN DIMERIZATION ACTIVITY 19 1149 2.55e-05 0.005921
4 STEROID HORMONE RECEPTOR ACTIVITY 5 59 2.158e-05 0.005921
5 IDENTICAL PROTEIN BINDING 19 1209 5.096e-05 0.00789
6 TRANSCRIPTION FACTOR BINDING 12 524 4.512e-05 0.00789
NumGOOverlapSizeP ValueAdj. P Value

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 Cellular_senescence_hsa04218 6 160 0.0003124 0.008989
2 VEGF_signaling_pathway_hsa04370 4 59 0.0003579 0.008989
3 Mitophagy_animal_hsa04137 4 65 0.0005186 0.008989
4 Cell_cycle_hsa04110 5 124 0.0007235 0.009406
5 Apoptosis_hsa04210 5 138 0.00117 0.01216
6 Ferroptosis_hsa04216 3 40 0.001528 0.01294
7 mTOR_signaling_pathway_hsa04150 5 151 0.001741 0.01294
8 Sphingolipid_signaling_pathway_hsa04071 4 118 0.004667 0.02569
9 AMPK_signaling_pathway_hsa04152 4 121 0.0051 0.02569
10 Autophagy_animal_hsa04140 4 128 0.006213 0.02569
11 Rap1_signaling_pathway_hsa04015 5 206 0.006551 0.02569
12 p53_signaling_pathway_hsa04115 3 68 0.006907 0.02569
13 MAPK_signaling_pathway_hsa04010 6 295 0.006915 0.02569
14 FoxO_signaling_pathway_hsa04068 4 132 0.006916 0.02569
15 Apelin_signaling_pathway_hsa04371 4 137 0.007867 0.02628
16 Adherens_junction_hsa04520 3 72 0.008086 0.02628
17 ErbB_signaling_pathway_hsa04012 3 85 0.0127 0.03884
18 PI3K_Akt_signaling_pathway_hsa04151 6 352 0.01554 0.04489
19 HIF_1_signaling_pathway_hsa04066 3 100 0.01955 0.05352
20 cAMP_signaling_pathway_hsa04024 4 198 0.02678 0.06962
21 Regulation_of_actin_cytoskeleton_hsa04810 4 208 0.03129 0.07749
22 Ras_signaling_pathway_hsa04014 4 232 0.04387 0.1037
23 Cell_adhesion_molecules_.CAMs._hsa04514 3 145 0.05017 0.1105
24 Phospholipase_D_signaling_pathway_hsa04072 3 146 0.05101 0.1105
25 Jak_STAT_signaling_pathway_hsa04630 3 162 0.0655 0.1362
26 Peroxisome_hsa04146 2 83 0.08139 0.1628
27 Gap_junction_hsa04540 2 88 0.08992 0.1732
28 Focal_adhesion_hsa04510 3 199 0.1052 0.1953
29 Lysosome_hsa04142 2 123 0.1556 0.2711
30 Oocyte_meiosis_hsa04114 2 124 0.1576 0.2711
31 Endocytosis_hsa04144 3 244 0.1629 0.2711
32 Signaling_pathways_regulating_pluripotency_of_stem_cells_hsa04550 2 139 0.188 0.2875
33 Cytokine_cytokine_receptor_interaction_hsa04060 3 270 0.1999 0.2924
34 Wnt_signaling_pathway_hsa04310 2 146 0.2024 0.2924
35 Hippo_signaling_pathway_hsa04390 2 154 0.2191 0.3079
36 cGMP_PKG_signaling_pathway_hsa04022 2 163 0.238 0.3257
37 Tight_junction_hsa04530 2 170 0.2527 0.337

Quest ID: fc0f3a06fcd515cd4f8399d86fac645b