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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-5p BRMS1 -0.91 0 0.66 0 MirTarget; miRanda -0.13 1.0E-5 NA
2 hsa-miR-125b-5p BRMS1 -1.36 0 0.66 0 MirTarget -0.2 0 NA
3 hsa-miR-122-5p CENPF -1.24 0 3.79 0 miRNAWalker2 validate -0.35 0 NA
4 hsa-miR-139-5p CENPF -2.11 0 3.79 0 miRanda -0.87 0 NA
5 hsa-miR-142-3p CENPF -1.42 0 3.79 0 miRanda -0.27 0.00024 NA
6 hsa-miR-192-5p CENPF -0.5 0.00345 3.79 0 miRNAWalker2 validate -0.18 0.02849 NA
7 hsa-miR-215-5p CENPF -0.98 3.0E-5 3.79 0 miRNAWalker2 validate -0.14 0.01787 NA
8 hsa-miR-30c-1-3p CENPF -1.39 0 3.79 0 MirTarget -0.39 0 NA
9 hsa-miR-30c-2-3p CENPF -1.4 0 3.79 0 MirTarget -0.55 0 NA
10 hsa-miR-3607-3p CENPF -2.16 0 3.79 0 MirTarget -0.5 0 NA
11 hsa-miR-874-3p CENPF -1.07 0 3.79 0 MirTarget -0.19 0.00423 NA
12 hsa-miR-23b-5p DYNLRB1 -1.05 0 0.63 0 MirTarget -0.14 0.00011 NA
13 hsa-let-7b-5p FANCD2 -0.96 0 2.43 0 miRNAWalker2 validate -0.36 0 NA
14 hsa-miR-193b-3p FANCD2 -0.17 0.27202 2.43 0 miRNAWalker2 validate -0.16 0.02847 NA
15 hsa-miR-199a-5p FANCD2 -1.99 0 2.43 0 miRanda -0.2 0 NA
16 hsa-miR-505-3p FANCD2 -1.2 0 2.43 0 miRNAWalker2 validate -0.33 0 NA
17 hsa-miR-542-3p FANCD2 -1.31 0 2.43 0 miRanda -0.4 0 NA
18 hsa-miR-125a-5p KIF18B -0.91 0 3.78 0 miRanda -0.27 0.00135 NA
19 hsa-miR-130a-3p KIF18B -1.53 0 3.78 0 mirMAP -0.45 0 NA
20 hsa-let-7b-5p KIFC1 -0.96 0 3.82 0 miRNAWalker2 validate -0.51 0 NA
21 hsa-miR-215-5p KIFC1 -0.98 3.0E-5 3.82 0 miRNAWalker2 validate -0.17 0.00578 NA
22 hsa-miR-26a-5p LSM2 -0.96 0 0.78 0 MirTarget -0.3 0 NA
23 hsa-miR-26b-5p LSM2 -1.11 0 0.78 0 MirTarget -0.24 0 NA
24 hsa-miR-3607-3p POLQ -2.16 0 3.13 0 MirTarget -0.42 0 NA
25 hsa-miR-664a-3p POLQ 0.49 0.00073 3.13 0 MirTarget -0.28 0.00286 NA
26 hsa-miR-590-3p RPL38 -0.47 2.0E-5 0.63 0 miRanda -0.17 0.00658 NA
27 hsa-miR-125b-5p SNRPB -1.36 0 1.09 0 miRNAWalker2 validate -0.36 0 NA
28 hsa-miR-139-5p SNRPB -2.11 0 1.09 0 miRanda -0.31 0 NA
29 hsa-miR-193b-3p SNRPB -0.17 0.27202 1.09 0 miRNAWalker2 validate -0.11 0.00536 NA
30 hsa-miR-326 SNRPB -1.88 0 1.09 0 miRanda -0.12 2.0E-5 NA
31 hsa-miR-542-3p SNRPB -1.31 0 1.09 0 miRanda -0.26 0 NA
32 hsa-let-7a-5p SNRPC -0.33 0.00046 0.79 0 miRNAWalker2 validate -0.31 0 NA
33 hsa-let-7f-5p SNRPC -0.23 0.10329 0.79 0 miRNAWalker2 validate -0.11 0.00368 NA
34 hsa-miR-16-5p SNRPC -0.4 0.0001 0.79 0 miRNAWalker2 validate -0.13 0.01102 NA
35 hsa-miR-26b-5p SNRPC -1.11 0 0.79 0 miRNAWalker2 validate -0.21 0 NA
36 hsa-let-7b-5p SNRPE -0.96 0 1.04 0 miRNAWalker2 validate -0.23 0 NA
37 hsa-miR-139-5p SNRPE -2.11 0 1.04 0 miRanda -0.24 0 NA
38 hsa-miR-126-5p XRCC2 -0.43 7.0E-5 2.64 0 mirMAP -0.61 0 NA
39 hsa-miR-26b-5p XRCC2 -1.11 0 2.64 0 miRNAWalker2 validate -0.63 0 NA
40 hsa-miR-126-5p ZWILCH -0.43 7.0E-5 0.94 0 mirMAP -0.25 0 NA

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
1 CHROMOSOME SEGREGATION 5 272 8.121e-07 0.00126
2 ORGANELLE FISSION 6 496 5.725e-07 0.00126
3 NUCLEAR CHROMOSOME SEGREGATION 5 228 3.393e-07 0.00126
4 MACROMOLECULAR COMPLEX ASSEMBLY 8 1398 1.146e-06 0.001334
5 SPLICEOSOMAL SNRNP ASSEMBLY 3 38 2.27e-06 0.002113
6 SISTER CHROMATID SEGREGATION 4 176 5.415e-06 0.0036
7 CELLULAR MACROMOLECULAR COMPLEX ASSEMBLY 6 727 5.285e-06 0.0036
8 RIBONUCLEOPROTEIN COMPLEX SUBUNIT ORGANIZATION 4 199 8.805e-06 0.005121
NumGOOverlapSizeP ValueAdj. P Value
NumGOOverlapSizeP ValueAdj. P Value
1 SMALL NUCLEAR RIBONUCLEOPROTEIN COMPLEX 4 60 7.162e-08 4.182e-05
2 U1 SNRNP 3 17 1.846e-07 5.39e-05
3 U4 U6 X U5 TRI SNRNP COMPLEX 3 21 3.605e-07 7.017e-05
4 SPLICEOSOMAL TRI SNRNP COMPLEX 3 26 7.032e-07 0.0001027
5 SPLICEOSOMAL COMPLEX 4 172 4.944e-06 0.0005774
6 CHROMOSOME 6 880 1.581e-05 0.001539
7 CATALYTIC STEP 2 SPLICEOSOME 3 89 2.993e-05 0.002185
8 METHYLOSOME 2 12 2.991e-05 0.002185
9 U5 SNRNP 2 16 5.43e-05 0.003171
10 U2 TYPE PRESPLICEOSOME 2 16 5.43e-05 0.003171
11 SMN SM PROTEIN COMPLEX 2 17 6.151e-05 0.003266
12 TELOMERASE HOLOENZYME COMPLEX 2 19 7.728e-05 0.003472
13 U2 SNRNP 2 19 7.728e-05 0.003472
14 PRESPLICEOSOME 2 21 9.483e-05 0.003692
15 RIBONUCLEOPROTEIN COMPLEX 5 721 9.166e-05 0.003692
16 PRECATALYTIC SPLICEOSOME 2 22 0.0001043 0.003806
17 MICROTUBULE ASSOCIATED COMPLEX 3 145 0.0001281 0.004402
18 U12 TYPE SPLICEOSOMAL COMPLEX 2 26 0.0001465 0.004752
19 U2 TYPE SPLICEOSOMAL COMPLEX 2 31 0.0002091 0.006428
20 CONDENSED CHROMOSOME 3 195 0.0003069 0.008962

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value

Quest ID: 4af57f2e4b7cd8c20bdb69b78756946b