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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-150-5p HNF1A -0.7 0.02153 1.32 0.00515 mirMAP -0.18 0.01322 NA
2 hsa-miR-15b-5p HNF1A -1.26 0 1.32 0.00515 mirMAP -0.31 0.00927 NA
3 hsa-miR-195-5p HNF1A -1.02 5.0E-5 1.32 0.00515 mirMAP -0.34 0.00016 NA
4 hsa-miR-214-3p HNF1A -1.11 4.0E-5 1.32 0.00515 MirTarget -0.29 0.00034 NA
5 hsa-miR-218-5p HNF1A -0.28 0.25955 1.32 0.00515 mirMAP -0.28 0.00174 NA
6 hsa-miR-221-5p HNF1A -2.22 0 1.32 0.00515 mirMAP -0.37 0 NA
7 hsa-miR-34c-5p HNF1A -1 0.07244 1.32 0.00515 miRanda; mirMAP -0.1 0.01109 NA
8 hsa-miR-424-5p HNF1A 1.26 1.0E-5 1.32 0.00515 mirMAP -0.21 0.00565 NA
9 hsa-miR-542-3p HNF1A 1.62 0 1.32 0.00515 miRanda -0.36 2.0E-5 NA

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
1 POSITIVE REGULATION OF GENE EXPRESSION 17 1733 8.088e-10 3.764e-06
2 BRANCHING MORPHOGENESIS OF AN EPITHELIAL TUBE 7 131 2.54e-09 5.91e-06
3 ORGAN MORPHOGENESIS 12 841 9.655e-09 1.497e-05
4 MORPHOGENESIS OF A BRANCHING STRUCTURE 7 167 1.378e-08 1.603e-05
5 LEUKOCYTE ACTIVATION 9 414 2.805e-08 2.369e-05
6 CELL ACTIVATION 10 568 3.054e-08 2.369e-05
7 RESPONSE TO ENDOGENOUS STIMULUS 14 1450 5.671e-08 3.77e-05
8 POSITIVE REGULATION OF TRANSCRIPTION FROM RNA POLYMERASE II PROMOTER 12 1004 6.847e-08 3.983e-05
9 LYMPHOCYTE ACTIVATION 8 342 1.06e-07 4.933e-05
10 REGULATION OF TRANSCRIPTION FROM RNA POLYMERASE II PROMOTER 15 1784 9.857e-08 4.933e-05
11 TISSUE MORPHOGENESIS 9 533 2.413e-07 0.0001021
12 POSITIVE REGULATION OF MULTICELLULAR ORGANISMAL PROCESS 13 1395 3.026e-07 0.0001173
13 EPITHELIUM DEVELOPMENT 11 945 3.629e-07 0.0001206
14 MORPHOGENESIS OF AN EPITHELIUM 8 400 3.502e-07 0.0001206
15 REGULATION OF EPITHELIAL CELL MIGRATION 6 166 3.971e-07 0.0001232
16 REGULATION OF CELLULAR COMPONENT MOVEMENT 10 771 5.229e-07 0.0001521
17 CELLULAR RESPONSE TO OXYGEN CONTAINING COMPOUND 10 799 7.245e-07 0.0001774
18 CELLULAR RESPONSE TO ENDOGENOUS STIMULUS 11 1008 6.894e-07 0.0001774
19 REGULATION OF CELL PROLIFERATION 13 1496 6.753e-07 0.0001774
20 POSITIVE REGULATION OF BIOSYNTHETIC PROCESS 14 1805 8.48e-07 0.0001973
21 REGULATION OF CELL ADHESION 9 629 9.652e-07 0.0002139
22 WOUND HEALING 8 470 1.181e-06 0.0002477
23 TUBE MORPHOGENESIS 7 323 1.225e-06 0.0002477
24 LYMPHOCYTE DIFFERENTIATION 6 209 1.528e-06 0.0002962
25 REGULATION OF PEPTIDYL TYROSINE PHOSPHORYLATION 6 213 1.706e-06 0.0003175
26 POSITIVE REGULATION OF RESPONSE TO STIMULUS 14 1929 1.89e-06 0.0003383
27 RESPONSE TO OXYGEN CONTAINING COMPOUND 12 1381 2.101e-06 0.0003621
28 NEGATIVE REGULATION OF HOMEOSTATIC PROCESS 5 124 2.363e-06 0.0003926
29 REGULATION OF IMMUNE SYSTEM PROCESS 12 1403 2.48e-06 0.0003979
30 IMMUNE SYSTEM PROCESS 14 1984 2.646e-06 0.0004104
31 TRANSCRIPTION FROM RNA POLYMERASE II PROMOTER 9 724 3.078e-06 0.000462
32 BRANCH ELONGATION OF AN EPITHELIUM 3 17 3.283e-06 0.0004773
33 NEGATIVE REGULATION OF CELL CELL ADHESION 5 138 3.997e-06 0.000547
34 TUBE DEVELOPMENT 8 552 3.903e-06 0.000547
35 RESPONSE TO WOUNDING 8 563 4.514e-06 0.0006001
36 LEUKOCYTE CELL CELL ADHESION 6 255 4.822e-06 0.0006232
37 TISSUE DEVELOPMENT 12 1518 5.627e-06 0.0007076
38 CARDIOVASCULAR SYSTEM DEVELOPMENT 9 788 6.135e-06 0.0007319
39 CIRCULATORY SYSTEM DEVELOPMENT 9 788 6.135e-06 0.0007319
40 POSITIVE REGULATION OF LOCOMOTION 7 420 6.931e-06 0.0008062
41 NEGATIVE REGULATION OF CELL ACTIVATION 5 158 7.741e-06 0.0008786
42 LEUKOCYTE DIFFERENTIATION 6 292 1.046e-05 0.001159
43 LENS FIBER CELL DIFFERENTIATION 3 25 1.1e-05 0.00119
44 CELLULAR RESPONSE TO LIPID 7 457 1.2e-05 0.001219
45 SINGLE ORGANISM CELL ADHESION 7 459 1.235e-05 0.001219
46 NEGATIVE REGULATION OF RESPONSE TO STIMULUS 11 1360 1.257e-05 0.001219
47 KIDNEY MORPHOGENESIS 4 82 1.247e-05 0.001219
48 NEGATIVE REGULATION OF CELL PROLIFERATION 8 643 1.192e-05 0.001219
49 POSITIVE REGULATION OF IMMUNE SYSTEM PROCESS 9 867 1.324e-05 0.001257
50 AXIS ELONGATION 3 27 1.395e-05 0.001298
51 POSITIVE REGULATION OF INTRACELLULAR SIGNAL TRANSDUCTION 9 876 1.438e-05 0.001312
52 RESPONSE TO LIPID 9 888 1.602e-05 0.001434
53 RESPONSE TO HORMONE 9 893 1.676e-05 0.001444
54 REGULATION OF STEM CELL PROLIFERATION 4 88 1.651e-05 0.001444
55 REGULATION OF CELL ACTIVATION 7 484 1.739e-05 0.001455
56 POSITIVE REGULATION OF DEVELOPMENTAL PROCESS 10 1142 1.751e-05 0.001455
57 MESONEPHROS DEVELOPMENT 4 90 1.804e-05 0.001473
58 ENZYME LINKED RECEPTOR PROTEIN SIGNALING PATHWAY 8 689 1.965e-05 0.001576
59 EPITHELIAL CELL DIFFERENTIATION 7 495 2.01e-05 0.001585
60 TRANSMEMBRANE RECEPTOR PROTEIN TYROSINE KINASE SIGNALING PATHWAY 7 498 2.09e-05 0.001621
61 LIPOPOLYSACCHARIDE MEDIATED SIGNALING PATHWAY 3 31 2.134e-05 0.001628
62 FC GAMMA RECEPTOR SIGNALING PATHWAY 4 95 2.234e-05 0.001677
63 REGULATION OF CELL DEATH 11 1472 2.645e-05 0.001953
64 REGULATION OF PROTEIN LOCALIZATION 9 950 2.737e-05 0.00199
65 REGULATION OF CELL DIFFERENTIATION 11 1492 2.999e-05 0.002114
66 NEGATIVE REGULATION OF HOMOTYPIC CELL CELL ADHESION 4 102 2.956e-05 0.002114
67 POSITIVE REGULATION OF EPITHELIAL CELL MIGRATION 4 103 3.072e-05 0.002134
68 RESPONSE TO ALCOHOL 6 362 3.514e-05 0.002404
69 NEGATIVE REGULATION OF MULTICELLULAR ORGANISMAL PROCESS 9 983 3.581e-05 0.002415
70 REGULATION OF PROTEIN LOCALIZATION TO NUCLEUS 5 218 3.655e-05 0.002429
71 CELLULAR RESPONSE TO HORMONE STIMULUS 7 552 4.034e-05 0.002632
72 NEGATIVE REGULATION OF CELL ADHESION 5 223 4.072e-05 0.002632
73 CELLULAR RESPONSE TO ORGANIC SUBSTANCE 12 1848 4.13e-05 0.002633
74 MAMMARY GLAND MORPHOGENESIS 3 40 4.64e-05 0.002804
75 REGULATION OF ENDOTHELIAL CELL MIGRATION 4 114 4.574e-05 0.002804
76 REGULATION OF CELLULAR LOCALIZATION 10 1277 4.578e-05 0.002804
77 REGULATION OF CELL CELL ADHESION 6 380 4.606e-05 0.002804
78 POSITIVE REGULATION OF PHOSPHATE METABOLIC PROCESS 9 1036 5.397e-05 0.003179
79 POSITIVE REGULATION OF PHOSPHORUS METABOLIC PROCESS 9 1036 5.397e-05 0.003179
80 IMMUNE SYSTEM DEVELOPMENT 7 582 5.641e-05 0.00328
81 GLAND DEVELOPMENT 6 395 5.711e-05 0.00328
82 BRANCHING INVOLVED IN URETERIC BUD MORPHOGENESIS 3 44 6.19e-05 0.00347
83 T CELL DIFFERENTIATION 4 123 6.154e-05 0.00347
84 KIDNEY EPITHELIUM DEVELOPMENT 4 125 6.553e-05 0.00363
85 NEGATIVE REGULATION OF ION TRANSPORT 4 127 6.971e-05 0.003771
86 POSITIVE REGULATION OF CELL DIFFERENTIATION 8 823 6.954e-05 0.003771
87 CELL CELL ADHESION 7 608 7.427e-05 0.003972
88 REGULATION OF CELL DEVELOPMENT 8 836 7.762e-05 0.004104
89 REGULATION OF IMMUNE RESPONSE 8 858 9.308e-05 0.004866
90 LOCOMOTION 9 1114 9.46e-05 0.004891
91 NEGATIVE REGULATION OF CALCIUM ION TRANSPORT 3 51 9.652e-05 0.004935
92 CENTRAL NERVOUS SYSTEM DEVELOPMENT 8 872 0.0001042 0.00527
93 MESONEPHRIC TUBULE MORPHOGENESIS 3 53 0.0001083 0.005404
94 POSITIVE REGULATION OF PROTEIN MODIFICATION PROCESS 9 1135 0.0001092 0.005404
95 EMBRYONIC ORGAN MORPHOGENESIS 5 279 0.0001174 0.005752
96 REGULATION OF MAPK CASCADE 7 660 0.000124 0.00601
97 NEGATIVE REGULATION OF TRANSPORT 6 458 0.0001289 0.006184
98 CELL PROLIFERATION 7 672 0.0001387 0.006583
99 HEART DEVELOPMENT 6 466 0.0001417 0.006659
100 VASCULATURE DEVELOPMENT 6 469 0.0001467 0.006827
101 POSITIVE REGULATION OF MAPK CASCADE 6 470 0.0001484 0.006838
102 NEGATIVE REGULATION OF CELL COMMUNICATION 9 1192 0.0001586 0.007233
103 POSITIVE REGULATION OF FIBROBLAST MIGRATION 2 11 0.000162 0.007262
104 UROGENITAL SYSTEM DEVELOPMENT 5 299 0.0001623 0.007262
105 NEGATIVE REGULATION OF CATION TRANSMEMBRANE TRANSPORT 3 61 0.0001648 0.007304
106 NEGATIVE REGULATION OF GENE EXPRESSION 10 1493 0.0001697 0.007448
107 POSITIVE REGULATION OF PEPTIDYL TYROSINE PHOSPHORYLATION 4 162 0.0001786 0.007693
108 IMMUNE EFFECTOR PROCESS 6 486 0.000178 0.007693
109 CELLULAR RESPONSE TO BIOTIC STIMULUS 4 163 0.0001828 0.007763
110 REGULATION OF HOMOTYPIC CELL CELL ADHESION 5 307 0.0001835 0.007763
111 NEGATIVE REGULATION OF NITROGEN COMPOUND METABOLIC PROCESS 10 1517 0.0001934 0.008097
112 HEMOSTASIS 5 311 0.0001949 0.008097
113 POSITIVE REGULATION OF CELL COMMUNICATION 10 1532 0.0002097 0.008559
114 LENS DEVELOPMENT IN CAMERA TYPE EYE 3 66 0.0002083 0.008559
115 POSITIVE REGULATION OF ENDOTHELIAL CELL MIGRATION 3 67 0.0002178 0.008813
116 REGULATION OF BODY FLUID LEVELS 6 506 0.0002214 0.008882
117 RESPONSE TO MOLECULE OF BACTERIAL ORIGIN 5 321 0.0002257 0.008976
118 ENDOCYTOSIS 6 509 0.0002286 0.009015
119 GLIOGENESIS 4 175 0.0002399 0.009382
120 NEGATIVE REGULATION OF TRANSCRIPTION FROM RNA POLYMERASE II PROMOTER 7 740 0.0002509 0.009727
NumGOOverlapSizeP ValueAdj. P Value
1 REGULATORY REGION NUCLEIC ACID BINDING 9 818 8.297e-06 0.00472
2 RNA POLYMERASE II TRANSCRIPTION FACTOR ACTIVITY SEQUENCE SPECIFIC DNA BINDING 8 629 1.016e-05 0.00472
NumGOOverlapSizeP ValueAdj. P Value
1 SIDE OF MEMBRANE 7 428 7.839e-06 0.004578

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 hsa04390_Hippo_signaling_pathway 5 154 6.833e-06 0.0007065
2 hsa04520_Adherens_junction 4 73 7.85e-06 0.0007065
3 hsa04380_Osteoclast_differentiation 3 128 0.001443 0.08658
4 hsa04510_Focal_adhesion 3 200 0.005095 0.1911
5 hsa04144_Endocytosis 3 203 0.00531 0.1911
6 hsa04664_Fc_epsilon_RI_signaling_pathway 2 79 0.008424 0.2527
7 hsa04666_Fc_gamma_R.mediated_phagocytosis 2 95 0.012 0.3085
8 hsa04670_Leukocyte_transendothelial_migration 2 117 0.0178 0.3539
9 hsa04360_Axon_guidance 2 130 0.02169 0.3539
10 hsa04530_Tight_junction 2 133 0.02263 0.3539
11 hsa04514_Cell_adhesion_molecules_.CAMs. 2 136 0.02359 0.3539
12 hsa04650_Natural_killer_cell_mediated_cytotoxicity 2 136 0.02359 0.3539
13 hsa04145_Phagosome 2 156 0.0304 0.3648
14 hsa04810_Regulation_of_actin_cytoskeleton 2 214 0.05383 0.5383
15 hsa04014_Ras_signaling_pathway 2 236 0.06397 0.606
16 hsa04010_MAPK_signaling_pathway 2 268 0.07975 0.6537
17 hsa04151_PI3K_AKT_signaling_pathway 2 351 0.1253 0.8058

Quest ID: cd80c5b98eee66146ee425cda4946462