Visible node/edge number:
Node colors:
Node labels:

show label of nodes with degree >=

Node sizes:
Edge colors:
Edge widths factor:
Layout:

gravity >=

edgeLength =

GRN in network:

Notice: IE browser need to manually refresh (F5) this page after resetting the network.

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-107 PTGIS 1.31 0 -4.49 0 miRanda -1.82 0 NA
2 hsa-miR-330-5p PTGIS 1.15 0 -4.49 0 miRanda -1.18 0 NA
3 hsa-miR-34c-5p PTGIS 2.07 0 -4.49 0 miRanda -0.27 0.00418 NA
4 hsa-miR-429 PTGIS 4.49 0 -4.49 0 miRNATAP -0.57 0 NA
5 hsa-miR-532-3p PTGIS 1.97 0 -4.49 0 miRNATAP -1.09 0 NA
6 hsa-miR-590-3p PTGIS 2.59 0 -4.49 0 miRanda -1.13 0 NA
NumGOOverlapSizeP ValueAdj. P Value
1 SMALL MOLECULE METABOLIC PROCESS 18 1767 5.493e-13 2.556e-09
2 COFACTOR METABOLIC PROCESS 9 334 4.74e-10 8.778e-07
3 SINGLE ORGANISM BIOSYNTHETIC PROCESS 14 1340 5.659e-10 8.778e-07
4 OXIDATION REDUCTION PROCESS 12 898 9.765e-10 1.136e-06
5 SMALL MOLECULE BIOSYNTHETIC PROCESS 9 443 5.628e-09 5.237e-06
6 MONOCARBOXYLIC ACID METABOLIC PROCESS 9 503 1.692e-08 1.142e-05
7 LIPID METABOLIC PROCESS 12 1158 1.718e-08 1.142e-05
8 LIPID BIOSYNTHETIC PROCESS 9 539 3.069e-08 1.785e-05
9 CELLULAR KETONE METABOLIC PROCESS 5 68 3.618e-08 1.871e-05
10 COENZYME METABOLIC PROCESS 7 265 6.183e-08 2.877e-05
11 QUINONE METABOLIC PROCESS 4 29 7.124e-08 3.013e-05
12 FAT SOLUBLE VITAMIN METABOLIC PROCESS 4 32 1.075e-07 4.17e-05
13 ORGANIC HYDROXY COMPOUND METABOLIC PROCESS 8 482 2.184e-07 7.567e-05
14 CELLULAR LIPID METABOLIC PROCESS 10 913 2.318e-07 7.567e-05
15 ORGANONITROGEN COMPOUND METABOLIC PROCESS 13 1796 2.439e-07 7.567e-05
16 SINGLE ORGANISM CATABOLIC PROCESS 10 957 3.583e-07 0.0001042
17 VITAMIN METABOLIC PROCESS 5 120 6.293e-07 0.0001722
18 STEROID METABOLIC PROCESS 6 237 7.871e-07 0.0002035
19 ORGANIC ACID METABOLIC PROCESS 9 953 3.709e-06 0.0009082
20 SMALL MOLECULE CATABOLIC PROCESS 6 328 5.164e-06 0.001201
21 ALCOHOL METABOLIC PROCESS 6 348 7.247e-06 0.001606
22 CIRCULATORY SYSTEM PROCESS 6 366 9.661e-06 0.001932
23 SODIUM ION HOMEOSTASIS 3 30 9.727e-06 0.001932
24 GLYCOSYL COMPOUND METABOLIC PROCESS 6 368 9.966e-06 0.001932
25 OXIDOREDUCTION COENZYME METABOLIC PROCESS 4 107 1.436e-05 0.002628
26 PURINE CONTAINING COMPOUND METABOLIC PROCESS 6 394 1.468e-05 0.002628
27 ALCOHOL BIOSYNTHETIC PROCESS 4 111 1.66e-05 0.002861
28 STEROID BIOSYNTHETIC PROCESS 4 114 1.844e-05 0.003065
29 ORGANOPHOSPHATE METABOLIC PROCESS 8 885 2.008e-05 0.003222
30 GLUCOSE METABOLIC PROCESS 4 119 2.184e-05 0.003279
31 LIPID CATABOLIC PROCESS 5 247 2.15e-05 0.003279
32 STEROL METABOLIC PROCESS 4 123 2.488e-05 0.003617
33 STEROL BIOSYNTHETIC PROCESS 3 43 2.921e-05 0.004119
34 REGULATION OF VASODILATION 3 48 4.075e-05 0.005576
35 FATTY ACID METABOLIC PROCESS 5 296 5.103e-05 0.006595
36 REGULATION OF BLOOD CIRCULATION 5 295 5.021e-05 0.006595
37 CELLULAR LIPID CATABOLIC PROCESS 4 151 5.552e-05 0.006981
38 HEXOSE METABOLIC PROCESS 4 157 6.461e-05 0.007911
39 CARBOHYDRATE DERIVATIVE METABOLIC PROCESS 8 1047 6.673e-05 0.007962
40 NUCLEOBASE CONTAINING SMALL MOLECULE METABOLIC PROCESS 6 535 8.128e-05 0.009005
41 MATERNAL PROCESS INVOLVED IN FEMALE PREGNANCY 3 60 7.972e-05 0.009005
42 COFACTOR BIOSYNTHETIC PROCESS 4 166 8.022e-05 0.009005
43 CATABOLIC PROCESS 10 1773 8.623e-05 0.009331
NumGOOverlapSizeP ValueAdj. P Value
1 TETRAPYRROLE BINDING 6 134 2.698e-08 2.506e-05
2 OXIDOREDUCTASE ACTIVITY 9 719 3.566e-07 0.0001656
3 MONOOXYGENASE ACTIVITY 4 95 8.962e-06 0.002775
4 NADP BINDING 3 44 3.132e-05 0.007274
5 OXIDOREDUCTASE ACTIVITY ACTING ON PAIRED DONORS WITH INCORPORATION OR REDUCTION OF MOLECULAR OXYGEN 4 155 6.146e-05 0.009517
6 INTRAMOLECULAR OXIDOREDUCTASE ACTIVITY 3 53 5.493e-05 0.009517
7 IRON ION BINDING 4 163 7.474e-05 0.009919
NumGOOverlapSizeP ValueAdj. P Value
1 NUCLEAR OUTER MEMBRANE ENDOPLASMIC RETICULUM MEMBRANE NETWORK 11 1005 4.766e-08 2.293e-05
2 ENDOPLASMIC RETICULUM 13 1631 7.854e-08 2.293e-05
3 ENDOPLASMIC RETICULUM PART 11 1163 2.104e-07 4.096e-05

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 cAMP_signaling_pathway_hsa04024 2 198 0.03114 0.7103

Quest ID: f776238dab231c4ca4eb682ae1714fc4