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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-615-3p UBE2C -0.78 0 3.36 0 miRNAWalker2 validate -0.28 0.00828 NA
NumGOOverlapSizeP ValueAdj. P Value
1 PROTEIN MODIFICATION BY SMALL PROTEIN CONJUGATION OR REMOVAL 20 873 5.744e-16 2.673e-12
2 PROTEIN POLYUBIQUITINATION 11 243 4.791e-12 7.431e-09
3 PROTEIN UBIQUITINATION 15 629 3.555e-12 7.431e-09
4 PROTEIN K48 LINKED UBIQUITINATION 7 47 1.052e-11 1.224e-08
5 PROTEIN CATABOLIC PROCESS 14 579 1.816e-11 1.69e-08
6 PROTEASOMAL PROTEIN CATABOLIC PROCESS 10 271 3.714e-10 2.881e-07
7 PROTEIN MONOUBIQUITINATION 6 51 1.532e-09 1.018e-06
8 REGULATION OF MITOTIC CELL CYCLE 11 468 5.075e-09 2.952e-06
9 MACROMOLECULE CATABOLIC PROCESS 14 926 8.224e-09 4.252e-06
10 REGULATION OF PROTEIN MODIFICATION BY SMALL PROTEIN CONJUGATION OR REMOVAL 9 280 1.036e-08 4.821e-06
11 POSITIVE REGULATION OF PROTEIN MODIFICATION BY SMALL PROTEIN CONJUGATION OR REMOVAL 8 196 1.165e-08 4.929e-06
12 PROTEOLYSIS 15 1208 2.948e-08 1.143e-05
13 POSITIVE REGULATION OF PROTEIN METABOLIC PROCESS 16 1492 6.881e-08 2.319e-05
14 REGULATION OF PROTEIN MODIFICATION PROCESS 17 1710 6.977e-08 2.319e-05
15 CELLULAR CATABOLIC PROCESS 15 1322 9.7e-08 2.728e-05
16 REGULATION OF TRANSFERASE ACTIVITY 13 946 9.736e-08 2.728e-05
17 REGULATION OF CELL CYCLE 13 949 1.01e-07 2.728e-05
18 POSITIVE REGULATION OF PROTEIN MODIFICATION PROCESS 14 1135 1.055e-07 2.728e-05
19 REGULATION OF LIGASE ACTIVITY 6 130 4.443e-07 0.0001088
20 PROTEIN UBIQUITINATION INVOLVED IN UBIQUITIN DEPENDENT PROTEIN CATABOLIC PROCESS 6 134 5.313e-07 0.0001177
21 REGULATION OF CELL CYCLE PHASE TRANSITION 8 321 5.19e-07 0.0001177
22 MITOTIC CELL CYCLE 11 766 7.467e-07 0.0001511
23 CATABOLIC PROCESS 16 1773 7.303e-07 0.0001511
24 ORGANELLE FISSION 9 496 1.322e-06 0.0002563
25 PROSTATE GLAND GROWTH 3 11 1.734e-06 0.0003228
26 PROSTATE GLAND DEVELOPMENT 4 41 2.131e-06 0.0003813
27 REGULATION OF PROTEIN CATABOLIC PROCESS 8 393 2.363e-06 0.0004055
28 REGULATION OF CELLULAR PROTEIN CATABOLIC PROCESS 7 274 2.44e-06 0.0004055
29 CELL CYCLE PROCESS 12 1081 3.199e-06 0.0005132
30 REGULATION OF PROTEIN UBIQUITINATION INVOLVED IN UBIQUITIN DEPENDENT PROTEIN CATABOLIC PROCESS 5 103 3.408e-06 0.0005214
31 REGULATION OF CELL CYCLE PROCESS 9 558 3.474e-06 0.0005214
32 REGULATION OF CATABOLIC PROCESS 10 731 4.002e-06 0.0005779
33 CELL CYCLE 13 1316 4.099e-06 0.0005779
34 PROTEIN AUTOUBIQUITINATION 4 49 4.4e-06 0.0006021
35 POSITIVE REGULATION OF LIGASE ACTIVITY 5 110 4.709e-06 0.000626
36 POSITIVE REGULATION OF TRANSFERASE ACTIVITY 9 616 7.736e-06 0.0009998
37 POSITIVE REGULATION OF CELL PROLIFERATION 10 814 1.031e-05 0.001297
38 RESPONSE TO ENDOGENOUS STIMULUS 13 1450 1.178e-05 0.001443
39 RESPONSE TO STEROID HORMONE 8 497 1.32e-05 0.001575
40 MITOTIC NUCLEAR DIVISION 7 361 1.481e-05 0.001723
41 ORGAN GROWTH 4 68 1.639e-05 0.00186
42 INTRACELLULAR STEROID HORMONE RECEPTOR SIGNALING PATHWAY 4 71 1.946e-05 0.002156
43 POSITIVE REGULATION OF MOLECULAR FUNCTION 14 1791 2.356e-05 0.002549
44 REGULATION OF PROTEOLYSIS 9 711 2.423e-05 0.002563
45 POSITIVE REGULATION OF PROTEIN CATABOLIC PROCESS 6 263 2.588e-05 0.002614
46 POSITIVE REGULATION OF CATABOLIC PROCESS 7 395 2.641e-05 0.002614
47 GLAND DEVELOPMENT 7 395 2.641e-05 0.002614
48 PROTEIN K11 LINKED UBIQUITINATION 3 27 2.998e-05 0.002906
49 REPRODUCTIVE SYSTEM DEVELOPMENT 7 408 3.247e-05 0.003083
50 REGULATION OF PHOSPHORUS METABOLIC PROCESS 13 1618 3.781e-05 0.003518
51 REGULATION OF KINASE ACTIVITY 9 776 4.803e-05 0.004382
52 CELL DIVISION 7 460 6.931e-05 0.005864
53 POSITIVE REGULATION OF CELLULAR PROTEIN CATABOLIC PROCESS 5 192 6.924e-05 0.005864
54 NEGATIVE REGULATION OF CELL CYCLE G1 S PHASE TRANSITION 4 98 6.922e-05 0.005864
55 REGULATION OF CYCLIN DEPENDENT PROTEIN KINASE ACTIVITY 4 97 6.651e-05 0.005864
56 NEGATIVE REGULATION OF MITOTIC CELL CYCLE 5 199 8.2e-05 0.006814
57 POSITIVE REGULATION OF CATALYTIC ACTIVITY 12 1518 9.522e-05 0.007773
58 ANDROGEN RECEPTOR SIGNALING PATHWAY 3 41 0.0001069 0.008574
59 NEGATIVE REGULATION OF MOLECULAR FUNCTION 10 1079 0.0001134 0.008941
NumGOOverlapSizeP ValueAdj. P Value
1 UBIQUITIN LIKE PROTEIN TRANSFERASE ACTIVITY 14 420 2.414e-13 2.243e-10
2 UBIQUITIN LIKE PROTEIN LIGASE ACTIVITY 9 199 5.185e-10 2.409e-07
3 LIGASE ACTIVITY 10 406 1.801e-08 5.577e-06
4 UBIQUITIN LIKE PROTEIN CONJUGATING ENZYME ACTIVITY 4 29 5.096e-07 0.0001029
5 ENZYME BINDING 16 1737 5.538e-07 0.0001029
6 UBIQUITIN LIKE PROTEIN LIGASE BINDING 7 264 1.907e-06 0.0002952
7 BETA CATENIN BINDING 4 84 3.783e-05 0.005021
NumGOOverlapSizeP ValueAdj. P Value
1 UBIQUITIN LIGASE COMPLEX 10 262 2.673e-10 1.561e-07
2 CATALYTIC COMPLEX 15 1038 3.838e-09 1.121e-06
3 TRANSFERASE COMPLEX 12 703 3.212e-08 6.252e-06
4 NUCLEAR UBIQUITIN LIGASE COMPLEX 4 42 2.351e-06 0.0003433

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 hsa04120_Ubiquitin_mediated_proteolysis 11 139 1.014e-14 1.826e-12
2 hsa04141_Protein_processing_in_endoplasmic_reticulum 5 168 3.668e-05 0.003301
3 hsa04151_PI3K_AKT_signaling_pathway 6 351 0.000128 0.00768
4 hsa04115_p53_signaling_pathway 3 69 0.0005027 0.02262
5 hsa04510_Focal_adhesion 4 200 0.001049 0.03777
6 hsa04110_Cell_cycle 3 128 0.002986 0.08959
7 hsa04350_TGF.beta_signaling_pathway 2 85 0.0157 0.4037
8 hsa04114_Oocyte_meiosis 2 114 0.02719 0.6117
9 hsa04310_Wnt_signaling_pathway 2 151 0.04538 0.8266
10 hsa04630_Jak.STAT_signaling_pathway 2 155 0.04755 0.8266
11 hsa04020_Calcium_signaling_pathway 2 177 0.06018 0.9027
12 hsa04144_Endocytosis 2 203 0.0764 1
13 hsa04014_Ras_signaling_pathway 2 236 0.0987 1

Quest ID: a60646b6241e5423b100b83a80f57819