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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-let-7a-5p CCR7 0.62 3.0E-5 0.43 0.49465 miRTarBase; TargetScan; miRNATAP -0.61 0.00343 22251626 In the present study the authors demonstrated that microRNA miRNA let-7a downregulates CCR7 expression and directly influences the migration and invasion of breast cancer cells; The expression of CCR7 its ligand CCL21 and let-7a was detected in breast cancer cell lines and in breast cancer patient tissues; To confirm the fact that 3'UTR of CCR7 is a direct target of let-7a a luciferase assay for the reporter gene expressing the let-7a binding sites of CCR7 3'UTR was used; In addition a reverse correlation in the expression of CCR7 and let-7a in breast cancer cell lines and breast cancer patient tissues was detected; Synthetic let-7a decreased breast cancer cell proliferation migration and invasion as well as CCR7 protein expression in MDA-MB-231 cells; The 3'UTR of CCR7 was confirmed as a direct target of let-7a by using the luciferase assay for the reporter gene expressing let-7a CCR7 3'UTR binding sites; The results from the present study suggest that targeting of CCL21-CCR7 signaling is a valid approach for breast cancer therapy and that let-7a directly binds to the 3'UTR of CCR7 and blocks its protein expression thereby suppressing migration and invasion of human breast cancer cells
2 hsa-let-7b-5p CCR7 0.6 0.0014 0.43 0.49465 miRNATAP -0.68 2.0E-5 NA

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
1 REGULATION OF INTERFERON BETA PRODUCTION 5 44 7.853e-09 1.443e-05
2 POSITIVE REGULATION OF IMMUNE SYSTEM PROCESS 12 867 4.136e-09 1.443e-05
3 REGULATION OF IMMUNE SYSTEM PROCESS 14 1403 9.301e-09 1.443e-05
4 CELLULAR RESPONSE TO ORGANIC SUBSTANCE 15 1848 3.575e-08 4.159e-05
5 IMMUNE SYSTEM PROCESS 15 1984 9.252e-08 7.175e-05
6 POSITIVE REGULATION OF DEFENSE RESPONSE 8 364 8.007e-08 7.175e-05
7 POSITIVE REGULATION OF INTERFERON BETA PRODUCTION 4 30 1.436e-07 9.17e-05
8 REGULATION OF RESPONSE TO STRESS 13 1468 1.577e-07 9.17e-05
9 POSITIVE REGULATION OF RESPONSE TO STIMULUS 14 1929 5.075e-07 0.0002544
10 REGULATION OF IMMUNE RESPONSE 10 858 5.467e-07 0.0002544
11 PATTERN RECOGNITION RECEPTOR SIGNALING PATHWAY 5 109 7.851e-07 0.0003321
12 REGULATION OF TYPE I INTERFERON PRODUCTION 5 111 8.593e-07 0.0003332
13 POSITIVE REGULATION OF INFLAMMATORY RESPONSE 5 113 9.39e-07 0.0003361
14 REGULATION OF CELL DEATH 12 1472 1.362e-06 0.0004528
15 POSITIVE REGULATION OF CYTOKINE PRODUCTION 7 370 1.583e-06 0.0004911
16 REGULATION OF CYTOKINE PRODUCTION 8 563 2.173e-06 0.0005056
17 POSITIVE REGULATION OF CELL COMMUNICATION 12 1532 2.078e-06 0.0005056
18 DEFENSE RESPONSE 11 1231 1.782e-06 0.0005056
19 POSITIVE REGULATION OF INTERFERON ALPHA PRODUCTION 3 16 2.054e-06 0.0005056
20 POSITIVE REGULATION OF IMMUNE RESPONSE 8 563 2.173e-06 0.0005056
21 REGULATION OF INTERFERON ALPHA PRODUCTION 3 19 3.543e-06 0.000785
22 CELLULAR RESPONSE TO CYTOKINE STIMULUS 8 606 3.75e-06 0.0007932
23 POSITIVE REGULATION OF TYPE I INTERFERON PRODUCTION 4 70 4.595e-06 0.0009295
24 RESPONSE TO NITROGEN COMPOUND 9 859 5.483e-06 0.001029
25 POSITIVE REGULATION OF RESPONSE TO WOUNDING 5 162 5.53e-06 0.001029
26 POSITIVE REGULATION OF MULTICELLULAR ORGANISMAL PROCESS 11 1395 6.005e-06 0.001075
27 POSITIVE REGULATION OF RESPONSE TO EXTERNAL STIMULUS 6 296 6.548e-06 0.001128
28 RESPONSE TO LIPID 9 888 7.177e-06 0.001193
29 TOLL LIKE RECEPTOR SIGNALING PATHWAY 4 85 9.977e-06 0.001419
30 REGULATION OF MYELOID CELL DIFFERENTIATION 5 183 1.001e-05 0.001419
31 REGULATION OF RESPONSE TO EXTERNAL STIMULUS 9 926 1.006e-05 0.001419
32 REGULATION OF HEMOPOIESIS 6 314 9.172e-06 0.001419
33 RESPONSE TO ORGANIC CYCLIC COMPOUND 9 917 9.303e-06 0.001419
34 REGULATION OF PROTEOLYSIS 8 711 1.209e-05 0.001655
35 RESPONSE TO CYTOKINE 8 714 1.247e-05 0.001658
36 MYD88 INDEPENDENT TOLL LIKE RECEPTOR SIGNALING PATHWAY 3 30 1.467e-05 0.001896
37 ACTIVATION OF INNATE IMMUNE RESPONSE 5 204 1.692e-05 0.002128
38 REGULATION OF DEFENSE RESPONSE 8 759 1.94e-05 0.002286
39 INTRACELLULAR SIGNAL TRANSDUCTION 11 1572 1.873e-05 0.002286
40 POSITIVE REGULATION OF INTERLEUKIN 12 PRODUCTION 3 33 1.965e-05 0.002286
41 POSITIVE REGULATION OF PHOSPHATE METABOLIC PROCESS 9 1036 2.467e-05 0.002733
42 POSITIVE REGULATION OF PHOSPHORUS METABOLIC PROCESS 9 1036 2.467e-05 0.002733
43 CELLULAR RESPONSE TO OXYGEN CONTAINING COMPOUND 8 799 2.806e-05 0.003037
44 REGULATION OF INTRACELLULAR SIGNAL TRANSDUCTION 11 1656 3.052e-05 0.003228
45 REGULATION OF PEPTIDASE ACTIVITY 6 392 3.212e-05 0.003321
46 RESPONSE TO PEPTIDE 6 404 3.801e-05 0.003837
47 CYTOKINE PRODUCTION 4 120 3.892e-05 0.003837
48 IMMUNE RESPONSE 9 1100 3.958e-05 0.003837
49 POSITIVE REGULATION OF INNATE IMMUNE RESPONSE 5 246 4.15e-05 0.00394
50 REGULATION OF RESPONSE TO WOUNDING 6 413 4.298e-05 0.004
51 NEGATIVE REGULATION OF LEUKOCYTE APOPTOTIC PROCESS 3 43 4.396e-05 0.004011
52 REGULATION OF NEURON DEATH 5 252 4.654e-05 0.004164
53 LEUKOCYTE MIGRATION 5 259 5.301e-05 0.004485
54 NEGATIVE REGULATION OF CELL DEATH 8 872 5.229e-05 0.004485
55 ACTIVATION OF IMMUNE RESPONSE 6 427 5.174e-05 0.004485
56 POSITIVE REGULATION OF INTRACELLULAR SIGNAL TRANSDUCTION 8 876 5.402e-05 0.004488
57 RESPONSE TO BIOTIC STIMULUS 8 886 5.853e-05 0.004778
58 RESPONSE TO HORMONE 8 893 6.187e-05 0.004963
59 REGULATION OF TOLL LIKE RECEPTOR SIGNALING PATHWAY 3 49 6.52e-05 0.005056
60 POSITIVE REGULATION OF CHEMOKINE PRODUCTION 3 49 6.52e-05 0.005056
61 POSITIVE REGULATION OF BIOSYNTHETIC PROCESS 11 1805 6.772e-05 0.005165
62 CELLULAR RESPONSE TO PEPTIDE 5 274 6.921e-05 0.005194
63 RESPONSE TO EXTERNAL STIMULUS 11 1821 7.342e-05 0.005264
64 INFLAMMATORY RESPONSE 6 454 7.267e-05 0.005264
65 REGULATION OF INTERLEUKIN 12 PRODUCTION 3 51 7.354e-05 0.005264
66 CELLULAR RESPONSE TO ORGANIC CYCLIC COMPOUND 6 465 8.293e-05 0.005847
67 POSITIVE REGULATION OF TRANSPORT 8 936 8.61e-05 0.005979
68 PHOSPHORYLATION 9 1228 9.319e-05 0.006376
69 REGULATION OF INFLAMMATORY RESPONSE 5 294 9.648e-05 0.006506
70 IMMUNE EFFECTOR PROCESS 6 486 0.0001057 0.007027
71 MOVEMENT OF CELL OR SUBCELLULAR COMPONENT 9 1275 0.0001243 0.008148
72 POSITIVE REGULATION OF HEMOPOIESIS 4 163 0.000128 0.008239
73 DEFENSE RESPONSE TO VIRUS 4 164 0.000131 0.008239
74 CELLULAR RESPONSE TO NITROGEN COMPOUND 6 505 0.0001304 0.008239
75 POSITIVE REGULATION OF PRI MIRNA TRANSCRIPTION FROM RNA POLYMERASE II PROMOTER 2 11 0.0001352 0.008387
76 INTRACELLULAR RECEPTOR SIGNALING PATHWAY 4 168 0.0001438 0.008802
77 GLUCOSE HOMEOSTASIS 4 170 0.0001505 0.008948
78 REGULATION OF CHEMOKINE PRODUCTION 3 65 0.0001519 0.008948
79 CARBOHYDRATE HOMEOSTASIS 4 170 0.0001505 0.008948
80 REGULATION OF CARBOHYDRATE METABOLIC PROCESS 4 172 0.0001574 0.009154
81 NEGATIVE REGULATION OF PROTEOLYSIS 5 329 0.0001634 0.009269
82 I KAPPAB PHOSPHORYLATION 2 12 0.0001621 0.009269
83 REGULATION OF HYDROLASE ACTIVITY 9 1327 0.0001686 0.009452
NumGOOverlapSizeP ValueAdj. P Value
NumGOOverlapSizeP ValueAdj. P Value

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 hsa04062_Chemokine_signaling_pathway 6 189 4.859e-07 5.077e-05
2 hsa04620_Toll.like_receptor_signaling_pathway 5 102 5.642e-07 5.077e-05
3 hsa04622_RIG.I.like_receptor_signaling_pathway 3 71 0.0001975 0.01185
4 hsa04914_Progesterone.mediated_oocyte_maturation 3 87 0.00036 0.0162
5 hsa04722_Neurotrophin_signaling_pathway 3 127 0.001084 0.03903
6 hsa04630_Jak.STAT_signaling_pathway 3 155 0.00192 0.05761
7 hsa04150_mTOR_signaling_pathway 2 52 0.003129 0.08045
8 hsa00010_Glycolysis_._Gluconeogenesis 2 65 0.004844 0.1088
9 hsa04115_p53_signaling_pathway 2 69 0.005442 0.1088
10 hsa04971_Gastric_acid_secretion 2 74 0.006235 0.1122
11 hsa04012_ErbB_signaling_pathway 2 87 0.008524 0.1395
12 hsa04670_Leukocyte_transendothelial_migration 2 117 0.01501 0.2251
13 hsa04151_PI3K_AKT_signaling_pathway 3 351 0.01825 0.2457
14 hsa04650_Natural_killer_cell_mediated_cytotoxicity 2 136 0.01993 0.2457
15 hsa04910_Insulin_signaling_pathway 2 138 0.02048 0.2457
16 hsa04145_Phagosome 2 156 0.02573 0.2895
17 hsa04510_Focal_adhesion 2 200 0.04056 0.3464
18 hsa04014_Ras_signaling_pathway 2 236 0.05455 0.4269

Quest ID: 53d495643e49f023b8454e34be347b0d