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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-375 APOB -0.46 0.85424 -0.2 0.81456 miRanda -0.54 0 NA
2 hsa-miR-144-3p COL10A1 0.18 0.71511 -0.04 0.96724 miRNATAP -0.58 0 NA
3 hsa-miR-16-2-3p COL10A1 -0.19 0.70675 -0.04 0.96724 mirMAP -1.14 0 NA
4 hsa-miR-186-5p COL10A1 -0.07 0.95831 -0.04 0.96724 mirMAP -1.82 0 NA
5 hsa-miR-26a-5p COL10A1 0.06 0.97551 -0.04 0.96724 miRNATAP -0.88 0.02557 NA
6 hsa-miR-26b-5p COL10A1 -0 0.99861 -0.04 0.96724 miRNATAP -1.57 0 NA
7 hsa-miR-335-3p COL10A1 -0.18 0.889 -0.04 0.96724 mirMAP -0.94 0 NA
8 hsa-miR-335-5p COL10A1 0.08 0.90015 -0.04 0.96724 miRNAWalker2 validate -1.25 0 NA
9 hsa-miR-501-3p COL10A1 -0.58 0.55961 -0.04 0.96724 TargetScan; miRNATAP -0.86 0 NA
10 hsa-miR-502-3p COL10A1 -0.38 0.51286 -0.04 0.96724 miRNATAP -0.97 1.0E-5 NA
11 hsa-miR-590-3p COL10A1 -0.38 0.3697 -0.04 0.96724 miRanda; mirMAP -1.12 0 NA
12 hsa-let-7a-3p COL11A1 -0.21 0.81503 -0.09 0.92544 MirTarget; miRNATAP -0.97 0 NA
13 hsa-let-7f-1-3p COL11A1 -0.2 0.7459 -0.09 0.92544 MirTarget -1.14 0 NA
14 hsa-miR-126-5p COL11A1 0.02 0.98443 -0.09 0.92544 MirTarget; mirMAP -0.43 0.04098 NA
15 hsa-miR-141-3p COL11A1 -0.03 0.98616 -0.09 0.92544 miRNATAP -0.91 0 NA
16 hsa-miR-16-2-3p COL11A1 -0.19 0.70675 -0.09 0.92544 MirTarget; mirMAP -0.91 0 NA
17 hsa-miR-200a-3p COL11A1 -0.14 0.92825 -0.09 0.92544 miRNATAP -0.77 0 NA
18 hsa-miR-200c-5p COL11A1 -0.33 0.75908 -0.09 0.92544 MirTarget; miRNATAP -0.78 0 NA
19 hsa-miR-20a-3p COL11A1 0.47 0.47314 -0.09 0.92544 MirTarget -0.66 0 NA
20 hsa-miR-25-3p COL11A1 -0.32 0.88925 -0.09 0.92544 MirTarget -1.16 0 NA
21 hsa-miR-26a-5p COL11A1 0.06 0.97551 -0.09 0.92544 miRNATAP -0.93 0.00338 NA
22 hsa-miR-26b-5p COL11A1 -0 0.99861 -0.09 0.92544 miRNATAP -1.4 0 NA
23 hsa-miR-29a-3p COL11A1 0.01 0.99644 -0.09 0.92544 MirTarget; miRNATAP -1.38 0 NA
24 hsa-miR-29b-3p COL11A1 0.07 0.96461 -0.09 0.92544 MirTarget; miRNATAP -0.99 0 NA
25 hsa-miR-32-3p COL11A1 -0.64 0.05289 -0.09 0.92544 miRNATAP -0.79 0 NA
26 hsa-miR-32-5p COL11A1 -0.25 0.74419 -0.09 0.92544 MirTarget -1 0 NA
27 hsa-miR-324-3p COL11A1 -0.19 0.80413 -0.09 0.92544 PITA -0.58 0.00336 NA
28 hsa-miR-335-3p COL11A1 -0.18 0.889 -0.09 0.92544 mirMAP -0.64 1.0E-5 NA
29 hsa-miR-335-5p COL11A1 0.08 0.90015 -0.09 0.92544 miRNAWalker2 validate -1.01 0 NA
30 hsa-miR-339-5p COL11A1 -0.43 0.50213 -0.09 0.92544 MirTarget; PITA; miRanda -0.8 0 NA
31 hsa-miR-361-5p COL11A1 0.04 0.97982 -0.09 0.92544 miRanda; miRNATAP -0.71 0.01037 NA
32 hsa-miR-362-3p COL11A1 -0.74 0.01205 -0.09 0.92544 miRanda -0.63 0 NA
33 hsa-miR-374a-3p COL11A1 0 0.99904 -0.09 0.92544 MirTarget; miRNATAP -0.6 0.0002 NA
34 hsa-miR-374a-5p COL11A1 -0.27 0.76464 -0.09 0.92544 mirMAP -0.91 8.0E-5 NA
35 hsa-miR-374b-5p COL11A1 -0.11 0.91873 -0.09 0.92544 mirMAP -1.23 0 NA
36 hsa-miR-421 COL11A1 -0.05 0.90656 -0.09 0.92544 miRanda -0.72 0 NA
37 hsa-miR-429 COL11A1 -0.19 0.89348 -0.09 0.92544 miRanda -0.88 0 NA
38 hsa-miR-548o-3p COL11A1 -0.15 0.5411 -0.09 0.92544 MirTarget -0.51 0.00053 NA
39 hsa-miR-550a-3p COL11A1 -0.32 0.30379 -0.09 0.92544 MirTarget; miRNATAP -0.58 2.0E-5 NA
40 hsa-miR-590-3p COL11A1 -0.38 0.3697 -0.09 0.92544 miRanda; mirMAP -0.91 0 NA
41 hsa-miR-7-1-3p COL11A1 -0.18 0.83011 -0.09 0.92544 mirMAP -1.01 0 NA
42 hsa-miR-92a-3p COL11A1 0.09 0.97259 -0.09 0.92544 MirTarget -0.94 0 NA
43 hsa-miR-335-5p CST1 0.08 0.90015 0.19 0.83485 miRNAWalker2 validate -0.48 0.0039 NA
44 hsa-miR-335-5p CST4 0.08 0.90015 0.32 0.56017 miRNAWalker2 validate -0.35 0.01712 NA
45 hsa-miR-146b-5p ELF5 -0.24 0.87332 -0.12 0.90496 miRanda -1.03 0.00077 NA
46 hsa-miR-22-3p ELF5 0.03 0.99106 -0.12 0.90496 MirTarget; miRNATAP -1.2 0.01041 NA
47 hsa-miR-338-3p ELF5 0.31 0.8279 -0.12 0.90496 miRanda -0.62 0.00195 NA
48 hsa-miR-486-5p ELF5 -0.11 0.92269 -0.12 0.90496 miRanda -0.46 0.01132 NA
49 hsa-miR-582-5p ELF5 -0.19 0.73762 -0.12 0.90496 miRNATAP -1.13 0.0001 NA
50 hsa-miR-590-3p ELF5 -0.38 0.3697 -0.12 0.90496 miRanda; mirMAP -0.47 0.03694 NA
51 hsa-miR-92b-3p EN2 -0.48 0.66274 -0.49 0.55638 miRNATAP -0.52 0.01877 NA
52 hsa-miR-182-5p EPYC 0.08 0.97427 -0.36 0.65674 MirTarget -0.79 5.0E-5 NA
53 hsa-miR-203a-3p EPYC 0.04 0.98749 -0.36 0.65674 MirTarget -0.68 4.0E-5 NA
54 hsa-miR-590-3p EPYC -0.38 0.3697 -0.36 0.65674 MirTarget; miRanda; mirMAP; miRNATAP -1.04 0 NA
55 hsa-miR-140-3p FOXQ1 -0.23 0.89016 0.46 0.63909 MirTarget -0.6 0.00171 NA
56 hsa-miR-20b-5p FOXQ1 0.28 0.48508 0.46 0.63909 MirTarget -0.17 0.01371 NA
57 hsa-miR-342-3p FOXQ1 -0.31 0.75825 0.46 0.63909 miRanda; miRNATAP -0.29 0.0099 27162244 FOXM1 and FOXQ1 Are Promising Prognostic Biomarkers and Novel Targets of Tumor Suppressive miR 342 in Human Colorectal Cancer; Furthermore using bioinformatic approaches we identified miR-342 as a novel regulator of both FOXM1 and FOXQ1; Collectively we have firstly identified FOXM1 and FOXQ1 as promising prognostic biomarkers in colorectal cancer patients and provided novel evidence that therapeutic targeting of these genes or miR-342 may be a potential treatment approach in colorectal cancer patients
58 hsa-miR-378a-3p FOXQ1 -0.26 0.85109 0.46 0.63909 MirTarget -0.29 0.01678 NA
59 hsa-miR-26b-5p IBSP -0 0.99861 -0.19 0.77762 miRNAWalker2 validate -0.56 0.03078 NA
60 hsa-let-7f-5p KLK6 0.16 0.94491 1.1 0.18334 miRNAWalker2 validate -0.69 0.03537 NA
61 hsa-miR-335-3p KLK6 -0.18 0.889 1.1 0.18334 MirTarget -0.41 0.03543 NA
62 hsa-miR-30b-3p KLK7 -0.12 0.70751 0.19 0.81204 MirTarget -0.46 0.04725 NA
63 hsa-miR-335-5p KLK7 0.08 0.90015 0.19 0.81204 miRNAWalker2 validate -0.66 0.00252 NA
64 hsa-miR-429 KLK7 -0.19 0.89348 0.19 0.81204 miRanda -0.38 0.04887 NA
65 hsa-miR-146b-5p KRT23 -0.24 0.87332 1.19 0.23436 miRanda -1 0.00014 NA
66 hsa-miR-29b-2-5p KRT75 -0.02 0.97111 0.58 0.46092 MirTarget -0.7 0.02548 NA
67 hsa-miR-142-3p KRT80 0.05 0.97983 0.34 0.71365 miRanda -0.18 0.00814 NA
68 hsa-miR-148b-5p KRT80 -0.06 0.83242 0.34 0.71365 mirMAP -0.22 0.00441 NA
69 hsa-miR-155-5p KRT80 -0.39 0.78945 0.34 0.71365 miRNAWalker2 validate -0.19 0.02139 NA
70 hsa-miR-200b-3p KRT80 -0.12 0.9515 0.34 0.71365 TargetScan -0.24 0.00438 NA
71 hsa-miR-326 KRT80 -0.48 0.58911 0.34 0.71365 miRanda -0.19 0.03041 NA
72 hsa-miR-429 KRT80 -0.19 0.89348 0.34 0.71365 miRanda; miRNATAP -0.16 0.01544 NA
73 hsa-miR-590-3p KRT80 -0.38 0.3697 0.34 0.71365 mirMAP -0.19 0.00689 NA
74 hsa-miR-625-5p KRT80 -0.37 0.42562 0.34 0.71365 mirMAP -0.12 0.04934 NA
75 hsa-miR-940 KRT80 -0.36 0.41132 0.34 0.71365 mirMAP; miRNATAP -0.13 0.03123 NA
76 hsa-miR-126-3p MMP7 0.01 0.9946 -0.43 0.67459 miRNAWalker2 validate -0.72 0.00078 NA
77 hsa-miR-126-5p MMP7 0.02 0.98443 -0.43 0.67459 miRNAWalker2 validate -0.54 0.01407 NA
78 hsa-miR-542-3p MMP7 0.01 0.99335 -0.43 0.67459 miRanda -0.45 0.03247 NA
79 hsa-miR-590-3p MMP7 -0.38 0.3697 -0.43 0.67459 miRanda -0.39 0.00681 NA
80 hsa-miR-590-5p MMP7 -0.51 0.40268 -0.43 0.67459 miRanda -0.53 0.00051 NA
81 hsa-let-7e-5p MS4A10 0.19 0.90955 0.46 0.65121 miRNAWalker2 validate -0.33 0.0226 NA
82 hsa-miR-335-5p MUC6 0.08 0.90015 -0.65 0.43826 miRNAWalker2 validate -0.48 0.04368 NA
83 hsa-miR-133b ONECUT3 0.25 0.6493 0.25 0.80679 mirMAP -0.19 0.0435 NA
84 hsa-miR-199b-5p ONECUT3 -0.1 0.92893 0.25 0.80679 mirMAP -0.55 0.00235 NA
85 hsa-miR-335-3p ONECUT3 -0.18 0.889 0.25 0.80679 mirMAP -0.46 0.00652 NA
86 hsa-miR-542-3p OTOP2 0.01 0.99335 0.34 0.73441 miRanda -0.44 0.0195 NA
87 hsa-miR-1269a SLC26A9 -0.07 0.94825 -0.71 0.3893 mirMAP -0.14 0.00697 NA
88 hsa-miR-421 SLC26A9 -0.05 0.90656 -0.71 0.3893 miRanda; miRNATAP -0.53 0.00739 NA
89 hsa-miR-153-3p SLCO1B3 -0.43 0.29202 -0.22 0.79899 MirTarget -0.5 0.00281 NA
90 hsa-miR-374b-5p SLCO1B3 -0.11 0.91873 -0.22 0.79899 MirTarget -0.72 0.04758 NA
91 hsa-miR-26b-5p SPRR1A -0 0.99861 0.36 0.71882 miRNAWalker2 validate -0.78 0.01422 NA
92 hsa-miR-542-3p SPRR1A 0.01 0.99335 0.36 0.71882 miRanda -0.62 0.03182 NA
93 hsa-miR-1275 SPRR1B -0.69 0.08956 0.31 0.75057 MirTarget -0.36 0.01372 NA
94 hsa-miR-590-5p SPRR1B -0.51 0.40268 0.31 0.75057 miRanda -0.51 0.01119 NA
95 hsa-miR-153-3p SPRR2A -0.43 0.29202 0.12 0.89945 MirTarget -0.56 5.0E-5 NA
96 hsa-miR-664a-5p SPRR2A 0.34 0.16023 0.12 0.89945 MirTarget -0.49 0.02508 NA
97 hsa-miR-335-5p SPRR3 0.08 0.90015 0.62 0.54064 miRNAWalker2 validate -0.91 1.0E-5 NA
98 hsa-miR-651-5p SPRR3 -0.35 0.32689 0.62 0.54064 MirTarget -0.4 0.01893 NA
99 hsa-miR-542-3p ZIC5 0.01 0.99335 -0.73 0.44243 PITA; miRanda -0.71 0.03427 NA

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
1 PEPTIDE CROSS LINKING 4 56 9.22e-07 0.00143
2 EPIDERMIS DEVELOPMENT 6 253 9.148e-07 0.00143
3 KERATINIZATION 4 50 5.813e-07 0.00143
4 TISSUE DEVELOPMENT 11 1518 1.939e-06 0.002256
5 MULTICELLULAR ORGANISMAL MACROMOLECULE METABOLIC PROCESS 4 79 3.693e-06 0.003436
6 MULTICELLULAR ORGANISM METABOLIC PROCESS 4 93 7.084e-06 0.005493
7 SKIN DEVELOPMENT 5 211 8.329e-06 0.005536
8 KERATINOCYTE DIFFERENTIATION 4 101 9.833e-06 0.005719
NumGOOverlapSizeP ValueAdj. P Value
1 STRUCTURAL MOLECULE ACTIVITY 9 732 2.908e-07 0.0002701
NumGOOverlapSizeP ValueAdj. P Value
1 CORNIFIED ENVELOPE 4 45 3.778e-07 0.0002206

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value

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 MEG3 hsa-miR-141-3p;hsa-miR-16-2-3p;hsa-miR-200a-3p;hsa-miR-200c-5p;hsa-miR-20a-3p;hsa-miR-25-3p;hsa-miR-26b-5p;hsa-miR-29a-3p;hsa-miR-29b-3p;hsa-miR-32-3p;hsa-miR-335-3p;hsa-miR-335-5p;hsa-miR-429;hsa-miR-7-1-3p 14 COL11A1 Sponge network -0.331 0.36099 -0.089 0.92544 0.507
2 EMX2OS hsa-let-7a-3p;hsa-let-7f-1-3p;hsa-miR-141-3p;hsa-miR-16-2-3p;hsa-miR-200a-3p;hsa-miR-200c-5p;hsa-miR-20a-3p;hsa-miR-25-3p;hsa-miR-26b-5p;hsa-miR-29a-3p;hsa-miR-29b-3p;hsa-miR-32-3p;hsa-miR-32-5p;hsa-miR-324-3p;hsa-miR-335-3p;hsa-miR-335-5p;hsa-miR-339-5p;hsa-miR-362-3p;hsa-miR-374a-3p;hsa-miR-374b-5p;hsa-miR-421;hsa-miR-548o-3p;hsa-miR-550a-3p;hsa-miR-590-3p;hsa-miR-7-1-3p;hsa-miR-92a-3p 26 COL11A1 Sponge network 0.54 0.535 -0.089 0.92544 0.462
3 CECR7 hsa-let-7a-3p;hsa-let-7f-1-3p;hsa-miR-141-3p;hsa-miR-16-2-3p;hsa-miR-200a-3p;hsa-miR-200c-5p;hsa-miR-20a-3p;hsa-miR-25-3p;hsa-miR-26b-5p;hsa-miR-29a-3p;hsa-miR-29b-3p;hsa-miR-32-3p;hsa-miR-324-3p;hsa-miR-335-3p;hsa-miR-335-5p;hsa-miR-361-5p;hsa-miR-362-3p;hsa-miR-429;hsa-miR-590-3p;hsa-miR-7-1-3p 20 COL11A1 Sponge network 0.377 0.6276 -0.089 0.92544 0.429
4 ZNF883 hsa-let-7a-3p;hsa-let-7f-1-3p;hsa-miR-16-2-3p;hsa-miR-200c-5p;hsa-miR-20a-3p;hsa-miR-25-3p;hsa-miR-26b-5p;hsa-miR-29a-3p;hsa-miR-29b-3p;hsa-miR-335-3p 10 COL11A1 Sponge network 0.278 0.62199 -0.089 0.92544 0.352

Quest ID: 1c405947751a71dbe54f2e72a58b86bd