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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-107 PGK1 0.24 0.01708 0.22 0.04286 miRanda -0.19 0.00034 NA
2 hsa-miR-130a-3p PGK1 -1.53 0 0.22 0.04286 mirMAP -0.16 0 NA
3 hsa-miR-193a-3p PGK1 -0.12 0.30939 0.22 0.04286 miRanda -0.18 6.0E-5 NA
4 hsa-miR-195-3p PGK1 -1.09 0 0.22 0.04286 mirMAP -0.1 0.00022 NA
5 hsa-miR-20a-5p PGK1 0.85 0 0.22 0.04286 miRNAWalker2 validate -0.15 0 NA
NumGOOverlapSizeP ValueAdj. P Value
1 ESTABLISHMENT OF PROTEIN LOCALIZATION TO ENDOPLASMIC RETICULUM 16 104 4.162e-24 1.937e-20
2 NUCLEAR TRANSCRIBED MRNA CATABOLIC PROCESS NONSENSE MEDIATED DECAY 16 118 3.554e-23 8.269e-20
3 PROTEIN LOCALIZATION TO ENDOPLASMIC RETICULUM 16 123 7.155e-23 1.11e-19
4 MULTI ORGANISM METABOLIC PROCESS 16 138 4.916e-22 5.718e-19
5 TRANSLATIONAL INITIATION 16 146 1.255e-21 1.168e-18
6 PROTEIN TARGETING TO MEMBRANE 16 157 4.179e-21 3.241e-18
7 RNA CATABOLIC PROCESS 17 227 4.394e-20 2.921e-17
8 RRNA METABOLIC PROCESS 17 255 3.223e-19 1.875e-16
9 RIBOSOME BIOGENESIS 17 308 7.942e-18 4.106e-15
10 ESTABLISHMENT OF PROTEIN LOCALIZATION TO MEMBRANE 16 264 1.923e-17 8.946e-15
11 INTERSPECIES INTERACTION BETWEEN ORGANISMS 21 662 4.212e-17 1.633e-14
12 SYMBIOSIS ENCOMPASSING MUTUALISM THROUGH PARASITISM 21 662 4.212e-17 1.633e-14
13 VIRAL LIFE CYCLE 16 290 8.569e-17 2.861e-14
14 ORGANIC CYCLIC COMPOUND CATABOLIC PROCESS 18 427 8.608e-17 2.861e-14
15 MRNA METABOLIC PROCESS 20 611 1.555e-16 4.823e-14
16 NCRNA PROCESSING 17 386 3.48e-16 1.012e-13
17 ESTABLISHMENT OF PROTEIN LOCALIZATION TO ORGANELLE 16 361 2.697e-15 7.381e-13
18 RIBONUCLEOPROTEIN COMPLEX BIOGENESIS 17 440 3.038e-15 7.852e-13
19 PROTEIN LOCALIZATION TO MEMBRANE 16 376 5.092e-15 1.247e-12
20 PROTEIN TARGETING 16 406 1.68e-14 3.908e-12
21 AMIDE BIOSYNTHETIC PROCESS 17 507 3.098e-14 6.863e-12
22 RNA PROCESSING 20 835 5.813e-14 1.229e-11
23 NCRNA METABOLIC PROCESS 17 533 6.986e-14 1.413e-11
24 PEPTIDE METABOLIC PROCESS 17 571 2.13e-13 4.129e-11
25 ORGANONITROGEN COMPOUND BIOSYNTHETIC PROCESS 21 1024 2.352e-13 4.378e-11
26 CELLULAR AMIDE METABOLIC PROCESS 18 727 8.195e-13 1.467e-10
27 PROTEIN LOCALIZATION TO ORGANELLE 16 556 2.076e-12 3.577e-10
28 CATABOLIC PROCESS 25 1773 2.523e-12 4.193e-10
29 ORGANONITROGEN COMPOUND METABOLIC PROCESS 24 1796 2.635e-11 4.228e-09
30 SINGLE ORGANISM CELLULAR LOCALIZATION 18 898 2.757e-11 4.276e-09
31 MEMBRANE ORGANIZATION 17 899 2.754e-10 4.134e-08
32 INTRACELLULAR PROTEIN TRANSPORT 16 781 3.25e-10 4.726e-08
33 MACROMOLECULE CATABOLIC PROCESS 17 926 4.339e-10 6.118e-08
34 CELLULAR CATABOLIC PROCESS 19 1322 1.916e-09 2.622e-07
35 ESTABLISHMENT OF LOCALIZATION IN CELL 20 1676 1.532e-08 2.037e-06
36 CELLULAR MACROMOLECULE LOCALIZATION 16 1234 2.087e-07 2.697e-05
37 HEXOSE CATABOLIC PROCESS 5 49 2.723e-07 3.424e-05
38 HEXOSE METABOLIC PROCESS 7 157 3.055e-07 3.741e-05
39 MONOSACCHARIDE CATABOLIC PROCESS 5 59 6.996e-07 8.346e-05
40 ESTABLISHMENT OF PROTEIN LOCALIZATION 16 1423 1.407e-06 0.0001636
41 MONOSACCHARIDE METABOLIC PROCESS 7 202 1.666e-06 0.0001891
42 SMALL MOLECULE CATABOLIC PROCESS 8 328 3.947e-06 0.0004372
43 CYTOPLASMIC TRANSLATION 4 41 5.549e-06 0.0006005
44 CARBOHYDRATE CATABOLIC PROCESS 5 113 1.745e-05 0.001845
45 GLUCOSE METABOLIC PROCESS 5 119 2.241e-05 0.002317
46 PROTEIN LOCALIZATION 16 1805 2.928e-05 0.002962
47 GLUCOSE CATABOLIC PROCESS 3 29 7.609e-05 0.007533
NumGOOverlapSizeP ValueAdj. P Value
1 STRUCTURAL CONSTITUENT OF RIBOSOME 16 212 5.662e-19 5.26e-16
2 RNA BINDING 23 1598 1.829e-11 8.493e-09
3 STRUCTURAL MOLECULE ACTIVITY 16 732 1.257e-10 3.894e-08
4 POLY A RNA BINDING 18 1170 1.986e-09 4.611e-07
5 MAGNESIUM ION BINDING 6 199 2.141e-05 0.003472
6 RRNA BINDING 4 58 2.243e-05 0.003472
NumGOOverlapSizeP ValueAdj. P Value
1 CYTOSOLIC RIBOSOME 16 113 1.709e-23 9.978e-21
2 RIBOSOMAL SUBUNIT 16 163 7.757e-21 2.265e-18
3 CYTOSOLIC PART 17 223 3.236e-20 6.299e-18
4 RIBOSOME 16 226 1.59e-18 2.322e-16
5 CYTOSOLIC LARGE RIBOSOMAL SUBUNIT 10 61 1.24e-15 1.448e-13
6 RIBONUCLEOPROTEIN COMPLEX 19 721 5.313e-14 5.172e-12
7 LARGE RIBOSOMAL SUBUNIT 10 95 1.292e-13 1.078e-11
8 CYTOSOLIC SMALL RIBOSOMAL SUBUNIT 6 44 2.654e-09 1.937e-07
9 CELL SUBSTRATE JUNCTION 11 398 1.371e-08 8.896e-07
10 SMALL RIBOSOMAL SUBUNIT 6 68 3.904e-08 2.28e-06
11 ANCHORING JUNCTION 11 489 1.116e-07 5.922e-06

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 PI3K_Akt_signaling_pathway_hsa04151 5 352 0.003249 0.1649
2 FoxO_signaling_pathway_hsa04068 3 132 0.006341 0.1649
3 p53_signaling_pathway_hsa04115 2 68 0.01612 0.2794
4 HIF_1_signaling_pathway_hsa04066 2 100 0.03306 0.4297
5 AMPK_signaling_pathway_hsa04152 2 121 0.04669 0.4474
6 Autophagy_animal_hsa04140 2 128 0.05162 0.4474
7 mTOR_signaling_pathway_hsa04150 2 151 0.06903 0.46
8 Cellular_senescence_hsa04218 2 160 0.0763 0.46
9 Necroptosis_hsa04217 2 164 0.07961 0.46
10 MAPK_signaling_pathway_hsa04010 2 295 0.2054 0.89

Quest ID: 6bb95a7f6cea846660e0764cfbdc9cc5