Visible node/edge number:
Node colors:
Node labels:

show label of nodes with degree >=

Node sizes:
Edge colors:
Edge widths factor:
Layout:

gravity >=

edgeLength =

GRN in network:

Notice: IE browser need to manually refresh (F5) this page after resetting the network.

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-378a-3p ADAMDEC1 0.5 0 -0.96 0.00038 MirTarget -0.29 0.00817 NA
2 hsa-miR-378a-3p ADM2 0.5 0 -1.39 0 mirMAP -0.19 0.00133 NA
3 hsa-miR-378a-3p CBX2 0.5 0 -1.3 0 mirMAP -0.51 0 NA
4 hsa-miR-378a-3p CELSR3 0.5 0 -1.49 0 MirTarget -0.56 0 NA
5 hsa-miR-378a-3p DVL1 0.5 0 -0.75 0 miRNAWalker2 validate -0.15 1.0E-5 NA
6 hsa-miR-378a-3p E2F2 0.5 0 -1.44 0 MirTarget -0.38 0 NA
7 hsa-miR-378a-3p E2F5 0.5 0 -1 0 miRNAWalker2 validate -0.17 0.00015 NA
8 hsa-miR-378a-3p ECH1 0.5 0 -0.2 0.00849 miRNAWalker2 validate -0.1 0.00079 NA
9 hsa-miR-378a-3p FCGR1A 0.5 0 -0.48 0.00483 MirTarget -0.31 1.0E-5 NA
10 hsa-miR-378a-3p FCGR1B 0.5 0 -0.53 0.00016 MirTarget -0.26 0 NA
11 hsa-miR-378a-3p FOXRED2 0.5 0 -0.7 0 miRNAWalker2 validate -0.15 5.0E-5 NA
12 hsa-miR-378a-3p GALNT7 0.5 0 -1.29 0 miRNAWalker2 validate -0.16 0.00639 NA
13 hsa-miR-378a-3p GNB1L 0.5 0 -0.38 5.0E-5 mirMAP -0.18 0 NA
14 hsa-miR-378a-3p GOLGA8B 0.5 0 -0.92 1.0E-5 miRNAWalker2 validate -0.18 0.0359 NA
15 hsa-miR-378a-3p GOLT1A 0.5 0 -0.09 0.54748 MirTarget; miRNATAP -0.19 0.00212 26255816 miR 378a 3p modulates tamoxifen sensitivity in breast cancer MCF 7 cells through targeting GOLT1A; GOLT1A was selected as one of the miR-378a-3p candidate target genes by in silico analysis
16 hsa-miR-378a-3p HDDC3 0.5 0 -0.48 0 miRNATAP -0.15 1.0E-5 NA
17 hsa-miR-378a-3p HIST1H2BD 0.5 0 -0.66 0 miRNAWalker2 validate -0.14 0.01376 NA
18 hsa-miR-378a-3p HIST1H3H 0.5 0 -1.49 0 miRNAWalker2 validate -0.39 1.0E-5 NA
19 hsa-miR-378a-3p KCNIP2 0.5 0 -0.59 3.0E-5 miRNATAP -0.18 0.0015 NA
20 hsa-miR-125a-3p KLK2 0.34 0.00401 -1.83 0 miRanda -0.41 0 NA
21 hsa-miR-34c-5p KLK2 -0.41 0.0147 -1.83 0 miRanda -0.17 0.00098 NA
22 hsa-miR-486-5p KLK2 0.57 0.00125 -1.83 0 miRanda -0.28 0 NA
23 hsa-miR-378a-3p LMX1B 0.5 0 -2.85 0 mirMAP -0.68 0 NA
24 hsa-miR-378a-3p MLX 0.5 0 -0.28 0 miRNAWalker2 validate -0.11 0 NA
25 hsa-miR-378a-3p MRPL37 0.5 0 -0.52 0 miRNAWalker2 validate -0.12 1.0E-5 NA
26 hsa-miR-378a-3p MSC 0.5 0 -0.18 0.23802 miRNAWalker2 validate; miRTarBase -0.13 0.03113 NA
27 hsa-miR-378a-3p NCAPG 0.5 0 -1.97 0 MirTarget -0.5 0 NA
28 hsa-miR-378a-3p NME4 0.5 0 -0.44 0 miRNAWalker2 validate -0.11 0.00139 NA
29 hsa-miR-378a-3p PCCB 0.5 0 -0.4 0 miRNAWalker2 validate; mirMAP -0.1 0.00011 NA
30 hsa-miR-378a-3p RABEP2 0.5 0 -1.02 0 miRNAWalker2 validate -0.16 0.00077 NA
31 hsa-miR-378a-3p SCML1 0.5 0 0.06 0.59491 MirTarget -0.1 0.01982 NA
32 hsa-miR-378a-3p SMPD3 0.5 0 -0.87 0 mirMAP -0.13 0.04916 NA
33 hsa-miR-378a-3p SOD1 0.5 0 -0.23 0.00092 miRNAWalker2 validate -0.11 5.0E-5 NA
34 hsa-miR-378a-3p SREBF1 0.5 0 -0.52 1.0E-5 miRNAWalker2 validate -0.14 0.00474 NA
35 hsa-miR-378a-3p SRGAP1 0.5 0 -0.24 0.04253 mirMAP -0.12 0.01268 NA
36 hsa-miR-378a-3p TIGD1 0.5 0 -0.5 0 miRNAWalker2 validate -0.23 0 NA
37 hsa-miR-378a-3p TMEM120B 0.5 0 -0.93 0 mirMAP -0.13 0.00016 NA
38 hsa-miR-378a-3p TMEM130 0.5 0 -0.79 0.00028 MirTarget -0.59 0 NA
39 hsa-miR-378a-3p TMEM86A 0.5 0 -0.84 0 MirTarget -0.13 0.00082 NA
40 hsa-miR-378a-3p UBA52 0.5 0 -0.46 0 miRNAWalker2 validate -0.11 0.00211 NA
41 hsa-miR-378a-3p UHRF1 0.5 0 -1.27 0 MirTarget -0.29 0.00013 NA
42 hsa-miR-378a-3p USMG5 0.5 0 -0.49 0 miRNAWalker2 validate -0.1 0.01212 NA
43 hsa-miR-378a-3p ZNHIT3 0.5 0 -0.29 0 miRNAWalker2 validate -0.12 0 NA

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
NumGOOverlapSizeP ValueAdj. P Value
NumGOOverlapSizeP ValueAdj. P Value

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 Peroxisome_hsa04146 2 83 0.01256 0.6533
2 Cell_cycle_hsa04110 2 124 0.02671 0.6945
3 Cellular_senescence_hsa04218 2 160 0.04255 0.7376

Quest ID: 84fdebee85f389c4e7eaadb140072794