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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 ACSL1 -0.84 4.0E-5 -2.33 0 miRanda -0.24 0.0001 NA
2 hsa-miR-181a-5p ACSL1 0.25 0.05519 -2.33 0 MirTarget -0.6 0 NA
3 hsa-miR-181b-5p ACSL1 0.49 0.00105 -2.33 0 MirTarget -0.69 0 NA
4 hsa-miR-181c-5p ACSL1 -0.01 0.96913 -2.33 0 MirTarget -0.46 0 NA
5 hsa-miR-181d-5p ACSL1 0.16 0.36381 -2.33 0 MirTarget -0.47 0 NA
6 hsa-miR-218-5p ACSL1 -0.5 0.03986 -2.33 0 MirTarget; miRNATAP -0.15 0.00314 NA
7 hsa-miR-301a-3p ACSL1 0.84 0 -2.33 0 MirTarget; miRNATAP -0.56 0 NA
8 hsa-miR-429 ACSL1 -1.4 7.0E-5 -2.33 0 miRNATAP -0.17 0 NA
9 hsa-miR-454-3p ACSL1 0.67 0 -2.33 0 MirTarget -0.54 0 NA
10 hsa-miR-93-3p ACSL1 0.4 0.00131 -2.33 0 miRNAWalker2 validate -0.44 1.0E-5 NA

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
1 SINGLE ORGANISM BIOSYNTHETIC PROCESS 22 1340 6.519e-10 3.033e-06
2 LIPID METABOLIC PROCESS 20 1158 2.026e-09 4.714e-06
3 CELLULAR LIPID METABOLIC PROCESS 17 913 1.418e-08 2.199e-05
4 COFACTOR METABOLIC PROCESS 11 334 2.506e-08 2.915e-05
5 COENZYME METABOLIC PROCESS 10 265 3.194e-08 2.973e-05
6 SMALL MOLECULE BIOSYNTHETIC PROCESS 12 443 4.721e-08 3.661e-05
7 SMALL MOLECULE METABOLIC PROCESS 22 1767 1.022e-07 6.795e-05
8 ORGANONITROGEN COMPOUND METABOLIC PROCESS 21 1796 6.233e-07 0.0003223
9 POSITIVE REGULATION OF CELL CYCLE ARREST 6 85 5.658e-07 0.0003223
10 FATTY ACYL COA METABOLIC PROCESS 5 51 1.011e-06 0.0004704
11 ACYL COA BIOSYNTHETIC PROCESS 5 54 1.35e-06 0.0005235
12 THIOESTER BIOSYNTHETIC PROCESS 5 54 1.35e-06 0.0005235
13 COFACTOR BIOSYNTHETIC PROCESS 7 166 2.035e-06 0.0007282
14 REGULATION OF CELL CYCLE ARREST 6 108 2.322e-06 0.0007716
15 LIPID BIOSYNTHETIC PROCESS 11 539 2.918e-06 0.0008512
16 RESPONSE TO OSMOTIC STRESS 5 63 2.927e-06 0.0008512
17 G1 DNA DAMAGE CHECKPOINT 5 73 6.085e-06 0.001573
18 COENZYME BIOSYNTHETIC PROCESS 6 127 5.949e-06 0.001573
19 MITOTIC CELL CYCLE CHECKPOINT 6 139 9.994e-06 0.002447
20 THIOESTER METABOLIC PROCESS 5 83 1.144e-05 0.002536
21 ACYL COA METABOLIC PROCESS 5 83 1.144e-05 0.002536
22 NEUTRAL LIPID METABOLIC PROCESS 5 85 1.286e-05 0.00272
23 REGULATION OF CELL CYCLE PHASE TRANSITION 8 321 1.784e-05 0.003609
24 CARBOHYDRATE METABOLIC PROCESS 11 662 2.023e-05 0.003922
25 SIGNAL TRANSDUCTION IN RESPONSE TO DNA DAMAGE 5 96 2.325e-05 0.004161
26 POSITIVE REGULATION OF CELL CYCLE 8 332 2.271e-05 0.004161
27 ORGANIC ACID METABOLIC PROCESS 13 953 2.675e-05 0.004237
28 POSITIVE REGULATION OF CELL CYCLE PROCESS 7 247 2.732e-05 0.004237
29 RESPONSE TO EXTRACELLULAR STIMULUS 9 441 2.522e-05 0.004237
30 NEGATIVE REGULATION OF CELL CYCLE G1 S PHASE TRANSITION 5 98 2.569e-05 0.004237
31 MITOTIC DNA INTEGRITY CHECKPOINT 5 100 2.832e-05 0.004251
32 ORGANOPHOSPHATE BIOSYNTHETIC PROCESS 9 450 2.954e-05 0.004295
33 REGULATION OF MITOTIC CELL CYCLE 9 468 4.009e-05 0.005653
34 NAD METABOLIC PROCESS 4 55 4.337e-05 0.005936
35 RESPONSE TO ABIOTIC STIMULUS 13 1024 5.621e-05 0.007265
36 ORGANONITROGEN COMPOUND BIOSYNTHETIC PROCESS 13 1024 5.621e-05 0.007265
37 ORGANOPHOSPHATE METABOLIC PROCESS 12 885 6.025e-05 0.007577
38 RESPONSE TO LIPID 12 888 6.224e-05 0.007621
39 CELL CYCLE CHECKPOINT 6 194 6.54e-05 0.007803
40 MONOCARBOXYLIC ACID METABOLIC PROCESS 9 503 6.991e-05 0.008012
41 CARBOHYDRATE BIOSYNTHETIC PROCESS 5 121 7.06e-05 0.008012
42 NEGATIVE REGULATION OF MITOTIC CELL CYCLE 6 199 7.529e-05 0.008341
43 PHOSPHATIDYLCHOLINE METABOLIC PROCESS 4 64 7.888e-05 0.008341
44 GLAND DEVELOPMENT 8 395 7.744e-05 0.008341
45 RESPONSE TO ORGANIC CYCLIC COMPOUND 12 917 8.46e-05 0.008748
46 SIGNAL TRANSDUCTION BY P53 CLASS MEDIATOR 5 127 8.881e-05 0.008984
47 MICROTUBULE BASED PROCESS 9 522 9.277e-05 0.009184
NumGOOverlapSizeP ValueAdj. P Value
1 STRUCTURAL CONSTITUENT OF CYTOSKELETON 8 100 2.412e-09 2.241e-06
2 RIBONUCLEOTIDE BINDING 19 1860 1.766e-05 0.008202
3 GTPASE ACTIVITY 7 246 2.662e-05 0.008242
NumGOOverlapSizeP ValueAdj. P Value

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 Phagosome_hsa04145 9 152 3.323e-09 1.728e-07
2 Gap_junction_hsa04540 7 88 2.651e-08 6.894e-07
3 Apoptosis_hsa04210 7 138 5.882e-07 1.019e-05
4 p53_signaling_pathway_hsa04115 3 68 0.001821 0.02368
5 Tight_junction_hsa04530 4 170 0.003145 0.0327
6 HIF_1_signaling_pathway_hsa04066 3 100 0.00542 0.04539
7 Apoptosis_multiple_species_hsa04215 2 33 0.00611 0.04539
8 PI3K_Akt_signaling_pathway_hsa04151 5 352 0.008279 0.04626
9 Ferroptosis_hsa04216 2 40 0.008884 0.04626
10 AMPK_signaling_pathway_hsa04152 3 121 0.009156 0.04626
11 Cell_cycle_hsa04110 3 124 0.009786 0.04626
12 Cellular_senescence_hsa04218 3 160 0.01932 0.08242
13 Necroptosis_hsa04217 3 164 0.02061 0.08242
14 TNF_signaling_pathway_hsa04668 2 108 0.05643 0.2096
15 Sphingolipid_signaling_pathway_hsa04071 2 118 0.06593 0.2285
16 FoxO_signaling_pathway_hsa04068 2 132 0.08004 0.2601
17 MAPK_signaling_pathway_hsa04010 3 295 0.08749 0.2676
18 Hippo_signaling_pathway_hsa04390 2 154 0.1039 0.3001
19 cGMP_PKG_signaling_pathway_hsa04022 2 163 0.1141 0.3123
20 Focal_adhesion_hsa04510 2 199 0.1573 0.4091
21 Regulation_of_actin_cytoskeleton_hsa04810 2 208 0.1686 0.4175

Quest ID: e3e9307d934fec1c94095a0f14625733