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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-3p ABCA1 1.42 0 -0.71 0.00276 mirMAP; miRNATAP -0.28 0 NA
2 hsa-let-7b-3p ABCA1 0.87 1.0E-5 -0.71 0.00276 mirMAP; miRNATAP -0.16 0.00449 NA
3 hsa-miR-101-3p ABCA1 0.52 0.00376 -0.71 0.00276 miRNATAP -0.22 0.00077 NA
4 hsa-miR-106a-5p ABCA1 2.49 0 -0.71 0.00276 MirTarget; miRNATAP -0.12 7.0E-5 NA
5 hsa-miR-106b-5p ABCA1 2.47 0 -0.71 0.00276 MirTarget; miRNATAP -0.21 0 NA
6 hsa-miR-126-5p ABCA1 0.9 2.0E-5 -0.71 0.00276 mirMAP -0.13 0.0165 NA
7 hsa-miR-128-3p ABCA1 1.64 0 -0.71 0.00276 MirTarget -0.19 0.00014 NA
8 hsa-miR-130b-3p ABCA1 3.54 0 -0.71 0.00276 miRNATAP -0.14 2.0E-5 NA
9 hsa-miR-148a-3p ABCA1 1.27 0 -0.71 0.00276 MirTarget; miRNATAP -0.13 0.00141 NA
10 hsa-miR-148b-3p ABCA1 1.98 0 -0.71 0.00276 MirTarget -0.19 0.00091 NA
11 hsa-miR-15b-3p ABCA1 2.34 0 -0.71 0.00276 mirMAP -0.14 0.00056 NA
12 hsa-miR-16-1-3p ABCA1 2.57 0 -0.71 0.00276 MirTarget -0.2 0 NA
13 hsa-miR-17-5p ABCA1 3.27 0 -0.71 0.00276 MirTarget; TargetScan; miRNATAP -0.18 0 NA
14 hsa-miR-183-5p ABCA1 4.2 0 -0.71 0.00276 MirTarget; miRNATAP -0.15 0 26935154 MiR 183 functions as an oncogene by targeting ABCA1 in colon cancer; We found that miR-183 targets the 3'UTR of ABCA1 mRNA; Subsequent experiments confirmed that miR-183 degraded ABCA1 mRNA in the colon cancer cells; Thus we conclude that miR-183 promotes proliferation and inhibits apoptosis by degrading ABCA1 in colon cancer
15 hsa-miR-186-5p ABCA1 1.47 0 -0.71 0.00276 mirMAP -0.18 0.0029 NA
16 hsa-miR-19a-3p ABCA1 3.42 0 -0.71 0.00276 miRNAWalker2 validate; MirTarget; miRNATAP -0.14 3.0E-5 27445062 The target genes of miR-19a such as ABCA1 and PTEN that had been suppressed by miR recovered their expression through CAP treatment
17 hsa-miR-19b-1-5p ABCA1 2.58 0 -0.71 0.00276 MirTarget -0.18 1.0E-5 NA
18 hsa-miR-19b-3p ABCA1 2.5 0 -0.71 0.00276 MirTarget; miRNATAP -0.2 0 NA
19 hsa-miR-200a-3p ABCA1 4.59 0 -0.71 0.00276 mirMAP -0.1 0 NA
20 hsa-miR-200b-3p ABCA1 3.78 0 -0.71 0.00276 TargetScan -0.12 0 NA
21 hsa-miR-20a-5p ABCA1 3.16 0 -0.71 0.00276 MirTarget; miRNATAP -0.18 0 NA
22 hsa-miR-301a-3p ABCA1 2.81 0 -0.71 0.00276 miRNATAP -0.18 0 NA
23 hsa-miR-30d-3p ABCA1 0.98 4.0E-5 -0.71 0.00276 MirTarget -0.14 0.0041 NA
24 hsa-miR-324-3p ABCA1 2.09 0 -0.71 0.00276 MirTarget; PITA; miRNATAP -0.19 0 NA
25 hsa-miR-331-5p ABCA1 2.17 0 -0.71 0.00276 MirTarget; PITA -0.12 0.0075 NA
26 hsa-miR-33a-5p ABCA1 3.8 0 -0.71 0.00276 miRNAWalker2 validate; miRTarBase; MirTarget; miRNATAP -0.1 0.00021 NA
27 hsa-miR-361-5p ABCA1 0.97 0 -0.71 0.00276 miRanda; mirMAP -0.32 0 NA
28 hsa-miR-374a-3p ABCA1 0.53 0.00193 -0.71 0.00276 mirMAP -0.25 0.00019 NA
29 hsa-miR-374a-5p ABCA1 0.48 0.0043 -0.71 0.00276 mirMAP -0.15 0.03261 NA
30 hsa-miR-429 ABCA1 4.49 0 -0.71 0.00276 miRNATAP -0.11 0 NA
31 hsa-miR-454-3p ABCA1 2.47 0 -0.71 0.00276 miRNATAP -0.17 0.00013 NA
32 hsa-miR-590-5p ABCA1 3.18 0 -0.71 0.00276 mirMAP -0.1 0.00537 NA
33 hsa-miR-592 ABCA1 1.52 0.00064 -0.71 0.00276 MirTarget; PITA; miRNATAP -0.12 1.0E-5 NA
34 hsa-miR-93-5p ABCA1 3.04 0 -0.71 0.00276 MirTarget; miRNATAP -0.21 0 NA
35 hsa-miR-96-5p ABCA1 4.89 0 -0.71 0.00276 TargetScan; miRNATAP -0.12 1.0E-5 NA

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
NumGOOverlapSizeP ValueAdj. P Value
1 IONOTROPIC GLUTAMATE RECEPTOR BINDING 3 23 3.005e-06 0.002792
2 GLUTAMATE RECEPTOR BINDING 3 37 1.303e-05 0.006054
NumGOOverlapSizeP ValueAdj. P Value

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 hsa04975_Fat_digestion_and_absorption 2 46 0.001501 0.2702
2 hsa04540_Gap_junction 2 90 0.005617 0.5055
3 hsa04310_Wnt_signaling_pathway 2 151 0.01516 0.7049

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 RP11-597D13.9 hsa-let-7a-3p;hsa-miR-106b-5p;hsa-miR-128-3p;hsa-miR-130b-3p;hsa-miR-15b-3p;hsa-miR-17-5p;hsa-miR-19a-3p;hsa-miR-19b-1-5p;hsa-miR-19b-3p;hsa-miR-20a-5p;hsa-miR-301a-3p;hsa-miR-324-3p;hsa-miR-331-5p;hsa-miR-33a-5p;hsa-miR-93-5p 15 ABCA1 Sponge network -0.477 0.37995 -0.709 0.00276 0.32
2 MIR143HG hsa-let-7a-3p;hsa-let-7b-3p;hsa-miR-101-3p;hsa-miR-106a-5p;hsa-miR-106b-5p;hsa-miR-126-5p;hsa-miR-128-3p;hsa-miR-130b-3p;hsa-miR-148a-3p;hsa-miR-148b-3p;hsa-miR-15b-3p;hsa-miR-16-1-3p;hsa-miR-17-5p;hsa-miR-183-5p;hsa-miR-186-5p;hsa-miR-19a-3p;hsa-miR-19b-1-5p;hsa-miR-19b-3p;hsa-miR-200a-3p;hsa-miR-200b-3p;hsa-miR-20a-5p;hsa-miR-301a-3p;hsa-miR-30d-3p;hsa-miR-324-3p;hsa-miR-331-5p;hsa-miR-33a-5p;hsa-miR-374a-3p;hsa-miR-374a-5p;hsa-miR-429;hsa-miR-590-5p;hsa-miR-592;hsa-miR-93-5p 32 ABCA1 Sponge network -4.237 0 -0.709 0.00276 0.316
3 RP11-531A24.5 hsa-let-7a-3p;hsa-let-7b-3p;hsa-miR-101-3p;hsa-miR-106a-5p;hsa-miR-106b-5p;hsa-miR-126-5p;hsa-miR-128-3p;hsa-miR-130b-3p;hsa-miR-148a-3p;hsa-miR-148b-3p;hsa-miR-15b-3p;hsa-miR-16-1-3p;hsa-miR-17-5p;hsa-miR-183-5p;hsa-miR-186-5p;hsa-miR-19a-3p;hsa-miR-19b-1-5p;hsa-miR-19b-3p;hsa-miR-20a-5p;hsa-miR-301a-3p;hsa-miR-30d-3p;hsa-miR-33a-5p;hsa-miR-361-5p;hsa-miR-374a-3p;hsa-miR-374a-5p;hsa-miR-454-3p 26 ABCA1 Sponge network -1.752 0 -0.709 0.00276 0.3
4 AP001055.6 hsa-let-7a-3p;hsa-let-7b-3p;hsa-miR-106a-5p;hsa-miR-106b-5p;hsa-miR-128-3p;hsa-miR-130b-3p;hsa-miR-148b-3p;hsa-miR-17-5p;hsa-miR-183-5p;hsa-miR-19a-3p;hsa-miR-19b-1-5p;hsa-miR-19b-3p;hsa-miR-20a-5p;hsa-miR-301a-3p 14 ABCA1 Sponge network -1.091 0.00522 -0.709 0.00276 0.295
5 AC020571.3 hsa-miR-101-3p;hsa-miR-106a-5p;hsa-miR-106b-5p;hsa-miR-130b-3p;hsa-miR-148b-3p;hsa-miR-15b-3p;hsa-miR-16-1-3p;hsa-miR-17-5p;hsa-miR-183-5p;hsa-miR-186-5p;hsa-miR-19a-3p;hsa-miR-19b-1-5p;hsa-miR-19b-3p;hsa-miR-20a-5p;hsa-miR-301a-3p;hsa-miR-33a-5p;hsa-miR-374a-5p;hsa-miR-96-5p 18 ABCA1 Sponge network -0.862 0.18422 -0.709 0.00276 0.277
6 AC093850.2 hsa-miR-106a-5p;hsa-miR-106b-5p;hsa-miR-15b-3p;hsa-miR-17-5p;hsa-miR-183-5p;hsa-miR-186-5p;hsa-miR-19a-3p;hsa-miR-19b-1-5p;hsa-miR-19b-3p;hsa-miR-20a-5p;hsa-miR-331-5p 11 ABCA1 Sponge network 2.314 0.06732 -0.709 0.00276 0.261
7 RP4-639F20.1 hsa-miR-106a-5p;hsa-miR-106b-5p;hsa-miR-126-5p;hsa-miR-128-3p;hsa-miR-130b-3p;hsa-miR-148b-3p;hsa-miR-17-5p;hsa-miR-183-5p;hsa-miR-186-5p;hsa-miR-19b-1-5p;hsa-miR-200a-3p;hsa-miR-20a-5p;hsa-miR-301a-3p;hsa-miR-96-5p 14 ABCA1 Sponge network -1.492 1.0E-5 -0.709 0.00276 0.258
8 RP11-284N8.3 hsa-let-7a-3p;hsa-let-7b-3p;hsa-miR-106a-5p;hsa-miR-106b-5p;hsa-miR-128-3p;hsa-miR-130b-3p;hsa-miR-148b-3p;hsa-miR-15b-3p;hsa-miR-16-1-3p;hsa-miR-17-5p;hsa-miR-183-5p;hsa-miR-186-5p;hsa-miR-19a-3p;hsa-miR-19b-1-5p;hsa-miR-19b-3p;hsa-miR-200a-3p;hsa-miR-200b-3p;hsa-miR-20a-5p;hsa-miR-301a-3p;hsa-miR-324-3p;hsa-miR-331-5p;hsa-miR-33a-5p;hsa-miR-590-5p;hsa-miR-93-5p;hsa-miR-96-5p 25 ABCA1 Sponge network -1.414 0.007 -0.709 0.00276 0.257
9 RP1-122P22.2 hsa-miR-101-3p;hsa-miR-130b-3p;hsa-miR-148a-3p;hsa-miR-148b-3p;hsa-miR-16-1-3p;hsa-miR-183-5p;hsa-miR-19a-3p;hsa-miR-19b-1-5p;hsa-miR-19b-3p;hsa-miR-324-3p 10 ABCA1 Sponge network -0.972 0.04242 -0.709 0.00276 0.255
10 PDZRN3-AS1 hsa-miR-101-3p;hsa-miR-106a-5p;hsa-miR-106b-5p;hsa-miR-126-5p;hsa-miR-128-3p;hsa-miR-130b-3p;hsa-miR-148b-3p;hsa-miR-15b-3p;hsa-miR-16-1-3p;hsa-miR-17-5p;hsa-miR-183-5p;hsa-miR-186-5p;hsa-miR-19a-3p;hsa-miR-19b-1-5p;hsa-miR-19b-3p;hsa-miR-200a-3p;hsa-miR-200b-3p;hsa-miR-20a-5p;hsa-miR-301a-3p;hsa-miR-361-5p;hsa-miR-590-5p 21 ABCA1 Sponge network -5.049 1.0E-5 -0.709 0.00276 0.252

Quest ID: 8b8f001ea1e696bea7f30cb3e779c7b5