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-17-5p EGFR 0.7 2.0E-5 -1.02 0 TargetScan -0.16 0.00764 NA
2 hsa-miR-17-5p EGLN1 0.7 2.0E-5 0.08 0.4055 TargetScan -0.1 9.0E-5 NA
3 hsa-miR-17-5p HIF1A 0.7 2.0E-5 -0.37 0.0111 TargetScan -0.21 0 NA
4 hsa-miR-17-5p JAK1 0.7 2.0E-5 -0.49 0 TargetScan -0.27 0 NA
5 hsa-miR-17-5p PIK3R1 0.7 2.0E-5 -0.89 0 TargetScan -0.21 0 NA
6 hsa-miR-17-5p ROCK2 0.7 2.0E-5 -0.34 0.09781 TargetScan -0.23 0.00013 NA
7 hsa-miR-17-5p TGFBR2 0.7 2.0E-5 -0.52 3.0E-5 TargetScan -0.2 0 25011053; 27120811 We demonstrate that miR-17 overexpression interferes with the TGFβ-EMT axis and hinders RCC sphere formation; and validated TGFBR2 as a direct and biologically relevant target during this process;MiR-17-5p was found to bind to the 3'UTR of TGFBR2 mRNA and further validation of this specific binding was performed through a reporter assay; An inverse correlation between miR-17-5p and TGFBR2 protein was observed in gastric cancer tissues; Cell studies revealed that miR-17-5p negatively regulated TGFBR2 expression by directly binding to the 3'UTR of TGFBR2 mRNA thereby promoting cell growth and migration; The results of our study suggest a novel regulatory network in gastric cancer mediated by miR-17-5p and TGFBR2 and may indicate that TGFBR2 could serve as a new therapeutic target in gastric cancer
8 hsa-miR-501-3p TGFBR2 1 0 -0.52 3.0E-5 TargetScan -0.12 0.00378 NA
NumGOOverlapSizeP ValueAdj. P Value
1 REGULATION OF VASCULATURE DEVELOPMENT 5 233 4.237e-09 1.971e-05
2 POSITIVE REGULATION OF LOCOMOTION 5 420 8.091e-08 0.0001882
3 RESPONSE TO OXYGEN CONTAINING COMPOUND 6 1381 7.068e-07 0.001096
4 ENZYME LINKED RECEPTOR PROTEIN SIGNALING PATHWAY 5 689 9.483e-07 0.001103
5 EMBRYONIC PLACENTA DEVELOPMENT 3 83 2.383e-06 0.001232
6 IN UTERO EMBRYONIC DEVELOPMENT 4 311 1.935e-06 0.001232
7 REGULATION OF MULTICELLULAR ORGANISMAL DEVELOPMENT 6 1672 2.201e-06 0.001232
8 REGULATION OF CELLULAR COMPONENT MOVEMENT 5 771 1.655e-06 0.001232
9 REGULATION OF PHOSPHORUS METABOLIC PROCESS 6 1618 1.811e-06 0.001232
10 RESPONSE TO HORMONE 5 893 3.419e-06 0.001497
11 RESPONSE TO ALCOHOL 4 362 3.539e-06 0.001497
12 CELLULAR RESPONSE TO ORGANIC SUBSTANCE 6 1848 3.983e-06 0.00152
13 PROTEIN PHOSPHORYLATION 5 944 4.497e-06 0.00152
14 POSITIVE REGULATION OF EPITHELIAL CELL MIGRATION 3 103 4.574e-06 0.00152
15 EMBRYONIC ORGAN DEVELOPMENT 4 406 5.58e-06 0.001731
16 RESPONSE TO ABIOTIC STIMULUS 5 1024 6.712e-06 0.001735
17 REGULATION OF ANATOMICAL STRUCTURE MORPHOGENESIS 5 1021 6.616e-06 0.001735
18 CELLULAR RESPONSE TO ENDOGENOUS STIMULUS 5 1008 6.212e-06 0.001735
19 POSITIVE REGULATION OF VASCULATURE DEVELOPMENT 3 133 9.869e-06 0.002417
20 MORPHOGENESIS OF AN EPITHELIAL FOLD 2 15 1.1e-05 0.002443
21 PLACENTA DEVELOPMENT 3 138 1.102e-05 0.002443
22 RESPONSE TO STEROID HORMONE 4 497 1.243e-05 0.002534
23 TRANSMEMBRANE RECEPTOR PROTEIN TYROSINE KINASE SIGNALING PATHWAY 4 498 1.252e-05 0.002534
24 DIGESTIVE SYSTEM DEVELOPMENT 3 148 1.36e-05 0.002637
25 REGULATION OF REACTIVE OXYGEN SPECIES METABOLIC PROCESS 3 152 1.473e-05 0.002742
26 TISSUE MORPHOGENESIS 4 533 1.638e-05 0.002823
27 PHOSPHORYLATION 5 1228 1.638e-05 0.002823
28 EMBRYO DEVELOPMENT ENDING IN BIRTH OR EGG HATCHING 4 554 1.907e-05 0.002975
29 REGULATION OF EPITHELIAL CELL MIGRATION 3 166 1.918e-05 0.002975
30 CELLULAR RESPONSE TO HORMONE STIMULUS 4 552 1.88e-05 0.002975
31 EMBRYONIC HEMOPOIESIS 2 20 1.989e-05 0.002986
32 POSITIVE REGULATION OF MULTICELLULAR ORGANISMAL PROCESS 5 1395 3.057e-05 0.004445
33 RESPONSE TO ENDOGENOUS STIMULUS 5 1450 3.692e-05 0.005205
34 REGULATION OF RESPONSE TO STRESS 5 1468 3.921e-05 0.005366
35 RESPONSE TO ESTROGEN 3 218 4.329e-05 0.005755
36 REGULATION OF TRANSCRIPTION FROM RNA POLYMERASE II PROMOTER IN RESPONSE TO HYPOXIA 2 32 5.182e-05 0.006698
37 REGULATION OF NUCLEOTIDE CATABOLIC PROCESS 2 36 6.578e-05 0.008272
38 CELLULAR RESPONSE TO OXYGEN CONTAINING COMPOUND 4 799 8.034e-05 0.009438
39 ERBB2 SIGNALING PATHWAY 2 39 7.733e-05 0.009438
40 NEGATIVE REGULATION OF DEVELOPMENTAL PROCESS 4 801 8.113e-05 0.009438
NumGOOverlapSizeP ValueAdj. P Value
1 ENZYME BINDING 7 1737 3.686e-08 3.425e-05
2 KINASE ACTIVITY 5 842 2.558e-06 0.001188
3 PROTEIN PHOSPHATASE BINDING 3 120 7.245e-06 0.001683
4 TRANSFERASE ACTIVITY TRANSFERRING PHOSPHORUS CONTAINING GROUPS 5 992 5.741e-06 0.001683
5 PHOSPHATASE BINDING 3 162 1.783e-05 0.003313
6 PROTEIN KINASE ACTIVITY 4 640 3.366e-05 0.005212
7 UBIQUITIN LIKE PROTEIN LIGASE BINDING 3 264 7.653e-05 0.009606
8 CYTOKINE RECEPTOR BINDING 3 271 8.272e-05 0.009606
NumGOOverlapSizeP ValueAdj. P Value

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 HIF_1_signaling_pathway_hsa04066 4 100 2.036e-08 1.059e-06
2 FoxO_signaling_pathway_hsa04068 3 132 9.647e-06 0.0002508
3 Jak_STAT_signaling_pathway_hsa04630 3 162 1.783e-05 0.000309
4 Focal_adhesion_hsa04510 3 199 3.298e-05 0.0003914
5 Regulation_of_actin_cytoskeleton_hsa04810 3 208 3.763e-05 0.0003914
6 PI3K_Akt_signaling_pathway_hsa04151 3 352 0.0001795 0.001556
7 Adherens_junction_hsa04520 2 72 0.0002653 0.001971
8 ErbB_signaling_pathway_hsa04012 2 85 0.0003697 0.002403
9 Sphingolipid_signaling_pathway_hsa04071 2 118 0.000711 0.004108
10 Autophagy_animal_hsa04140 2 128 0.0008357 0.004346
11 Signaling_pathways_regulating_pluripotency_of_stem_cells_hsa04550 2 139 0.0009843 0.004653
12 Phospholipase_D_signaling_pathway_hsa04072 2 146 0.001085 0.004702
13 Cellular_senescence_hsa04218 2 160 0.001301 0.005204
14 cAMP_signaling_pathway_hsa04024 2 198 0.001982 0.007362
15 Rap1_signaling_pathway_hsa04015 2 206 0.002143 0.007429
16 Ras_signaling_pathway_hsa04014 2 232 0.002708 0.0088
17 Endocytosis_hsa04144 2 244 0.00299 0.009145
18 Cytokine_cytokine_receptor_interaction_hsa04060 2 270 0.003646 0.01053
19 MAPK_signaling_pathway_hsa04010 2 295 0.004336 0.01187

Quest ID: 9cd1a6cfb2f335e8a640018bd3c89fb8