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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-125a-3p AGT -1.05 0 1.32 0.00813 miRanda -0.39 0.00013 NA
2 hsa-miR-330-5p AGT 0.17 0.33643 1.32 0.00813 miRanda -0.51 0.00011 NA
3 hsa-miR-214-3p ANKS4B -1.11 4.0E-5 2.81 0.00057 MirTarget -0.27 0.04947 NA
4 hsa-miR-342-3p ANKS4B -0.13 0.56103 2.81 0.00057 miRanda -0.44 0.01108 NA
5 hsa-miR-542-3p ANKS4B 1.62 0 2.81 0.00057 miRanda -0.67 0 NA
6 hsa-miR-766-3p ANKS4B 0.08 0.76009 2.81 0.00057 MirTarget -0.33 0.02417 NA
7 hsa-miR-590-3p ARSE 0.84 0.00129 0.64 0.28437 miRanda -0.53 3.0E-5 NA
8 hsa-miR-590-3p CPB2 0.84 0.00129 -6.11 0 miRanda -0.98 0 NA
9 hsa-miR-486-5p DNAJC12 -4.39 0 3.35 0 miRanda -0.3 0 NA
10 hsa-miR-326 EPS8L3 -0.99 0.00335 2.26 0.01193 miRanda -0.48 9.0E-5 NA
11 hsa-let-7b-5p F2 -1.62 0 1.55 0.01426 miRNAWalker2 validate -0.78 0 NA
12 hsa-miR-542-3p F2 1.62 0 1.55 0.01426 miRanda -0.46 3.0E-5 NA
13 hsa-miR-101-3p FGA 1.39 0 0.18 0.85428 MirTarget; miRNATAP -0.53 0.00464 NA
14 hsa-miR-140-5p FGA 0.67 0.00034 0.18 0.85428 miRanda -0.49 0.04361 NA
15 hsa-miR-146b-5p FGA 1.09 1.0E-5 0.18 0.85428 miRanda -0.58 0.00148 NA
16 hsa-miR-429 FGA 2.38 0 0.18 0.85428 miRNATAP -0.35 0.01491 NA
17 hsa-miR-125a-5p FGB -1.05 0 4.21 0.00052 MirTarget -0.89 0.001 NA
18 hsa-miR-125b-5p FGB -0.55 0.01072 4.21 0.00052 MirTarget -1.34 0 NA
19 hsa-miR-29a-3p FGB 0.1 0.5732 4.21 0.00052 miRNAWalker2 validate; miRTarBase -1.01 0.00137 NA
20 hsa-miR-338-3p FGB 0.73 0.05063 4.21 0.00052 miRanda -0.3 0.04587 NA
21 hsa-miR-34c-5p FGB -1 0.07244 4.21 0.00052 miRanda -0.61 0 NA
22 hsa-miR-486-5p FGB -4.39 0 4.21 0.00052 miRanda -0.31 0.0223 NA
23 hsa-miR-320a FGL1 -0.96 0 4.79 0 miRanda -0.52 0.04549 NA
24 hsa-miR-361-5p FGL1 0.21 0.0801 4.79 0 miRanda -1.48 5.0E-5 NA
25 hsa-miR-193a-5p HABP2 -1.16 0 0.89 0.18951 miRNATAP -0.43 0.00362 NA
26 hsa-miR-425-5p HABP2 1.22 0 0.89 0.18951 miRNATAP -0.43 0.00304 NA
27 hsa-miR-335-5p HAVCR1 -0.47 0.0677 3.38 1.0E-5 miRNAWalker2 validate -0.34 0.02715 NA
28 hsa-miR-125a-3p HGD -1.05 0 2.11 0.00326 miRanda -0.48 0.00126 NA
29 hsa-miR-542-3p HGD 1.62 0 2.11 0.00326 miRanda -0.46 0.00028 NA
30 hsa-miR-150-5p HNF1A -0.7 0.02153 1.32 0.00515 mirMAP -0.18 0.01322 NA
31 hsa-miR-15b-5p HNF1A -1.26 0 1.32 0.00515 mirMAP -0.31 0.00927 NA
32 hsa-miR-195-5p HNF1A -1.02 5.0E-5 1.32 0.00515 mirMAP -0.34 0.00016 NA
33 hsa-miR-214-3p HNF1A -1.11 4.0E-5 1.32 0.00515 MirTarget -0.29 0.00034 NA
34 hsa-miR-218-5p HNF1A -0.28 0.25955 1.32 0.00515 mirMAP -0.28 0.00174 NA
35 hsa-miR-221-5p HNF1A -2.22 0 1.32 0.00515 mirMAP -0.37 0 NA
36 hsa-miR-34c-5p HNF1A -1 0.07244 1.32 0.00515 miRanda; mirMAP -0.1 0.01109 NA
37 hsa-miR-424-5p HNF1A 1.26 1.0E-5 1.32 0.00515 mirMAP -0.21 0.00565 NA
38 hsa-miR-542-3p HNF1A 1.62 0 1.32 0.00515 miRanda -0.36 2.0E-5 NA
39 hsa-miR-130b-5p HNF4A 1.54 0 0.09 0.90873 mirMAP -0.41 0.00179 NA
40 hsa-miR-326 HNF4A -0.99 0.00335 0.09 0.90873 miRanda -0.26 0.01522 NA
41 hsa-miR-125a-5p HNF4G -1.05 0 3.63 0 miRanda -0.46 1.0E-5 NA
42 hsa-miR-139-5p HNF4G -2.27 0 3.63 0 miRanda -0.36 0 NA
43 hsa-miR-144-5p HNF4G -1.39 0.00024 3.63 0 mirMAP -0.15 0.01034 NA
44 hsa-miR-195-3p HNF4G -1.33 0 3.63 0 MirTarget; mirMAP -0.42 1.0E-5 NA
45 hsa-miR-23a-3p HNF4G 0.11 0.39309 3.63 0 MirTarget; miRNATAP -0.43 0.0123 NA
46 hsa-miR-30c-5p HNF4G -0.33 0.1236 3.63 0 MirTarget -0.4 0.0001 NA
47 hsa-miR-320a HNF4G -0.96 0 3.63 0 miRanda -0.26 0.04406 NA
48 hsa-miR-486-5p HNF4G -4.39 0 3.63 0 miRanda -0.27 0 NA
49 hsa-let-7a-3p IGFBP1 0.17 0.43183 0.07 0.91515 MirTarget -0.34 0.0324 NA
50 hsa-let-7b-3p IGFBP1 -1.82 0 0.07 0.91515 MirTarget -0.38 0.00831 NA
51 hsa-miR-34c-5p IGFBP1 -1 0.07244 0.07 0.91515 miRanda -0.15 0.0098 NA
52 hsa-miR-542-3p IGFBP1 1.62 0 0.07 0.91515 miRanda -0.25 0.03215 NA
53 hsa-let-7a-5p KCNC2 -1.37 0 1.51 0.01044 TargetScan; miRNATAP -0.71 0 NA
54 hsa-let-7b-3p KCNC2 -1.82 0 1.51 0.01044 mirMAP -0.6 0 NA
55 hsa-let-7b-5p KCNC2 -1.62 0 1.51 0.01044 miRNATAP -0.71 0 NA
56 hsa-miR-125b-5p KCNC2 -0.55 0.01072 1.51 0.01044 miRNATAP -0.54 2.0E-5 NA
57 hsa-miR-139-5p KCNC2 -2.27 0 1.51 0.01044 miRanda -0.4 2.0E-5 NA
58 hsa-miR-15b-5p KCNC2 -1.26 0 1.51 0.01044 MirTarget; miRNATAP -0.36 0.01673 NA
59 hsa-miR-181a-5p KCNC2 -0.38 0.05621 1.51 0.01044 MirTarget -0.43 0.00192 NA
60 hsa-miR-3065-3p KCNC2 0.38 0.30796 1.51 0.01044 miRNATAP -0.27 0.00022 NA
61 hsa-miR-30c-5p KCNC2 -0.33 0.1236 1.51 0.01044 mirMAP -0.35 0.00591 NA
62 hsa-miR-3127-5p KCNC2 0.38 0.11536 1.51 0.01044 MirTarget -0.34 0.00254 NA
63 hsa-miR-342-3p KCNC2 -0.13 0.56103 1.51 0.01044 miRanda -0.32 0.00887 NA
64 hsa-miR-486-5p KCNC2 -4.39 0 1.51 0.01044 miRanda -0.16 0.0138 NA
65 hsa-miR-450b-5p NTS 1.69 0 -1.57 0.05001 miRNATAP -0.42 0.00083 NA
66 hsa-miR-181a-5p PAH -0.38 0.05621 2.76 0.00046 mirMAP -1.02 0 NA
67 hsa-miR-181b-5p PAH 0.67 0.00024 2.76 0.00046 mirMAP -0.77 0.00013 NA
68 hsa-miR-195-3p PAH -1.33 0 2.76 0.00046 mirMAP -0.62 8.0E-5 NA
69 hsa-miR-3065-5p PAH 0.65 0.09995 2.76 0.00046 mirMAP -0.29 0.00385 NA
70 hsa-miR-491-5p PAH -0.47 0.06833 2.76 0.00046 miRanda -0.3 0.03221 NA
71 hsa-miR-221-5p PPP1R14D -2.22 0 5.21 0 MirTarget; miRNATAP -0.46 0 NA
72 hsa-miR-34c-5p PPP1R14D -1 0.07244 5.21 0 MirTarget; miRanda; miRNATAP -0.19 0.00278 NA
73 hsa-let-7a-5p RFX6 -1.37 0 0.57 0.312 MirTarget; TargetScan; miRNATAP -0.57 4.0E-5 NA
74 hsa-let-7b-5p RFX6 -1.62 0 0.57 0.312 MirTarget; miRNATAP -0.71 0 NA
75 hsa-let-7c-5p RFX6 -2.14 0 0.57 0.312 MirTarget -0.39 0.00013 NA
76 hsa-let-7i-5p RFX6 0.61 0 0.57 0.312 MirTarget; miRNATAP -0.93 1.0E-5 NA
77 hsa-miR-23a-3p RFX6 0.11 0.39309 0.57 0.312 MirTarget; miRNATAP -0.97 0 NA
78 hsa-miR-23b-3p RFX6 -0.07 0.62059 0.57 0.312 MirTarget; miRNATAP -0.4 0.02948 NA
79 hsa-miR-30a-5p RFX6 -0.92 0.00076 0.57 0.312 MirTarget; miRNATAP -0.3 0.00154 NA
80 hsa-miR-542-3p RFX6 1.62 0 0.57 0.312 miRanda -0.27 0.00611 NA
81 hsa-miR-26a-2-3p RNF186 0.26 0.30565 2.91 0 MirTarget -0.31 0.02396 NA
82 hsa-miR-326 SGK2 -0.99 0.00335 2.33 0 miRanda -0.22 0.00082 NA
83 hsa-miR-146b-3p SLC39A5 -0.81 0.00087 1.26 0.03819 MirTarget; PITA; miRNATAP -0.43 0.00021 NA
84 hsa-miR-421 SPINK1 0.17 0.53528 4.62 0 miRanda -0.46 0.00641 NA
85 hsa-miR-590-3p TM4SF4 0.84 0.00129 1.44 0.09892 miRanda -0.62 0.00078 NA
86 hsa-miR-590-3p TTR 0.84 0.00129 0.01 0.98314 miRanda -0.35 0.0181 NA
87 hsa-let-7a-3p VIL1 0.17 0.43183 4.78 0 mirMAP -1.07 1.0E-5 NA
88 hsa-let-7b-3p VIL1 -1.82 0 4.78 0 mirMAP -1.43 0 NA
89 hsa-let-7f-1-3p VIL1 -0.09 0.69397 4.78 0 mirMAP -1.16 0 NA
90 hsa-miR-224-3p VIL1 0.92 0.01001 4.78 0 mirMAP -0.62 0 NA
91 hsa-miR-29a-5p VIL1 1.9 0 4.78 0 mirMAP -0.39 0.04184 NA
92 hsa-miR-3065-5p VIL1 0.65 0.09995 4.78 0 mirMAP -0.27 0.03086 NA
93 hsa-miR-584-5p VIL1 -1.67 0 4.78 0 mirMAP -0.47 0.00155 NA
94 hsa-miR-664a-3p VIL1 0.44 0.02142 4.78 0 mirMAP -0.47 0.0482 NA

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
1 FIBRINOLYSIS 4 21 2.097e-08 9.757e-05
2 REGULATION OF HORMONE LEVELS 8 478 2.772e-07 0.0006448
3 REGULATION OF WOUND HEALING 5 126 9.639e-07 0.000897
4 RESPONSE TO WOUNDING 8 563 9.554e-07 0.000897
5 NEGATIVE REGULATION OF COAGULATION 4 48 6.636e-07 0.000897
6 NEGATIVE REGULATION OF WOUND HEALING 4 58 1.432e-06 0.001111
7 REGULATION OF HORMONE SECRETION 6 262 1.76e-06 0.00117
8 WOUND HEALING 7 470 3.774e-06 0.002195
9 REGULATION OF SECRETION 8 699 4.785e-06 0.002474
10 BLOOD COAGULATION FIBRIN CLOT FORMATION 3 25 6.17e-06 0.002871
11 REGULATION OF COAGULATION 4 88 7.64e-06 0.002962
12 REGULATION OF CELLULAR LOCALIZATION 10 1277 7.103e-06 0.002962
13 REGULATION OF PEPTIDE SECRETION 5 209 1.15e-05 0.004116
14 CHEMICAL HOMEOSTASIS 8 874 2.437e-05 0.007086
15 RESPONSE TO ENDOGENOUS STIMULUS 10 1450 2.171e-05 0.007086
16 REGULATION OF RESPONSE TO WOUNDING 6 413 2.374e-05 0.007086
17 REGULATION OF PEPTIDE TRANSPORT 5 256 3.052e-05 0.008353
NumGOOverlapSizeP ValueAdj. P Value
NumGOOverlapSizeP ValueAdj. P Value
1 EXTRACELLULAR SPACE 10 1376 1.373e-05 0.008019

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 hsa04610_Complement_and_coagulation_cascades 4 69 2.887e-06 0.0005196

lncRNA-mediated sponge

(Download full result)

Num lncRNA miRNAs           miRNAs count     Gene Sponge regulatory network lncRNA log2FC lncRNA pvalue Gene log2FC Gene pvalue lncRNA-gene Pearson correlation
1 RP11-474D1.3 hsa-let-7a-5p;hsa-let-7b-3p;hsa-let-7b-5p;hsa-miR-125b-5p;hsa-miR-139-5p;hsa-miR-15b-5p;hsa-miR-181a-5p;hsa-miR-3065-3p;hsa-miR-3127-5p;hsa-miR-342-3p 10 KCNC2 Sponge network 2.056 0.11938 1.511 0.01044 0.362

Quest ID: 733946c87ffc9f79fff5181ad4351fee