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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-26b-5p IGF2R 0.89 0 -0.15 0.34462 miRNAWalker2 validate -0.16 7.0E-5 NA
2 hsa-miR-378a-5p IGF2R 0.22 0.38637 -0.15 0.34462 MirTarget -0.13 2.0E-5 NA
3 hsa-miR-769-5p IGF2R 1.82 0 -0.15 0.34462 MirTarget -0.12 0.0001 NA
NumGOOverlapSizeP ValueAdj. P Value
1 ESTABLISHMENT OF PROTEIN LOCALIZATION 23 1423 3.379e-09 7.86e-06
2 ESTABLISHMENT OF LOCALIZATION IN CELL 25 1676 2.953e-09 7.86e-06
3 REGULATION OF TRANSPORT 25 1804 1.314e-08 2.038e-05
4 VESICLE MEDIATED TRANSPORT 20 1239 4.705e-08 5.473e-05
5 PROTEIN LOCALIZATION 24 1805 6.243e-08 5.81e-05
6 INTRACELLULAR PROTEIN TRANSPORT 15 781 3.436e-07 0.0002665
7 CELLULAR MACROMOLECULE LOCALIZATION 18 1234 1.117e-06 0.0007425
8 VACUOLAR TRANSPORT 8 253 7.058e-06 0.004105
9 REGULATION OF CELLULAR LOCALIZATION 17 1277 7.996e-06 0.004134
10 NEGATIVE REGULATION OF GLIOGENESIS 4 37 1.349e-05 0.006275
11 POSITIVE REGULATION OF TRANSPORT 14 936 1.595e-05 0.006746
NumGOOverlapSizeP ValueAdj. P Value
1 ION CHANNEL BINDING 6 111 5.101e-06 0.004283
2 GROWTH FACTOR BINDING 6 123 9.22e-06 0.004283
NumGOOverlapSizeP ValueAdj. P Value
1 ENDOSOME 19 793 1.766e-10 1.031e-07
2 CLATHRIN COAT 7 46 5.407e-10 1.266e-07
3 LATE ENDOSOME 11 213 7.403e-10 1.266e-07
4 CLATHRIN ADAPTOR COMPLEX 6 27 8.673e-10 1.266e-07
5 VACUOLE 21 1180 3.593e-09 4.197e-07
6 VACUOLAR PART 16 694 1.048e-08 9.009e-07
7 AP TYPE MEMBRANE COAT ADAPTOR COMPLEX 6 40 1.08e-08 9.009e-07
8 ENDOSOMAL PART 13 430 1.275e-08 9.311e-07
9 ENDOSOME LUMEN 5 26 5.213e-08 3.044e-06
10 COATED MEMBRANE 7 87 5.187e-08 3.044e-06
11 INTRACELLULAR VESICLE 19 1259 3.123e-07 1.658e-05
12 MULTIVESICULAR BODY 5 38 3.833e-07 1.866e-05
13 TRANS GOLGI NETWORK MEMBRANE 6 81 8.03e-07 3.607e-05
14 TRANS GOLGI NETWORK 8 193 9.448e-07 3.941e-05
15 VACUOLAR MEMBRANE 12 587 3.113e-06 0.0001212
16 MEMBRANE PROTEIN COMPLEX 15 1020 9.285e-06 0.0003389
17 CYTOPLASMIC VESICLE PART 11 601 2.334e-05 0.0008017
18 VESICLE MEMBRANE 10 512 3.277e-05 0.001007
19 ORGANELLE SUBCOMPARTMENT 8 311 3.128e-05 0.001007
20 LYTIC VACUOLE 10 526 4.115e-05 0.001144
21 GOLGI APPARATUS 17 1445 3.945e-05 0.001144
22 VACUOLAR LUMEN 5 115 9.247e-05 0.002455
23 EARLY ENDOSOME 7 301 0.0001873 0.004755
24 PERINUCLEAR REGION OF CYTOPLASM 10 642 0.0002123 0.005166
25 EXTRACELLULAR SPACE 15 1376 0.0002798 0.006535
26 CLATHRIN COATED VESICLE 5 157 0.0003948 0.008868

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 hsa04142_Lysosome 9 121 1.159e-09 2.086e-07
2 hsa04972_Pancreatic_secretion 4 101 0.0006886 0.06197
3 hsa04144_Endocytosis 5 203 0.001258 0.07547
4 hsa04971_Gastric_acid_secretion 3 74 0.003143 0.1414
5 hsa04962_Vasopressin.regulated_water_reabsorption 2 44 0.01309 0.4713
6 hsa04742_Taste_transduction 2 52 0.01798 0.5394
7 hsa04115_p53_signaling_pathway 2 69 0.03047 0.6759
8 hsa03320_PPAR_signaling_pathway 2 70 0.03129 0.6759
9 hsa04520_Adherens_junction 2 73 0.0338 0.6759
10 hsa04974_Protein_digestion_and_absorption 2 81 0.04084 0.7318
11 hsa04012_ErbB_signaling_pathway 2 87 0.04645 0.7318
12 hsa04540_Gap_junction 2 90 0.04935 0.7318
13 hsa04810_Regulation_of_actin_cytoskeleton 3 214 0.05285 0.7318
14 hsa04912_GnRH_signaling_pathway 2 101 0.06054 0.7784
15 hsa04530_Tight_junction 2 133 0.0972 0.9607
16 hsa04145_Phagosome 2 156 0.1265 1
17 hsa04020_Calcium_signaling_pathway 2 177 0.1548 1
18 hsa04510_Focal_adhesion 2 200 0.1871 1
19 hsa04010_MAPK_signaling_pathway 2 268 0.286 1
20 hsa04151_PI3K_AKT_signaling_pathway 2 351 0.4049 1

Quest ID: 912cd6dc9a32d173fa847e59997c3252