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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-125b-5p ABCC4 -1.36 0 0.96 0.00126 miRNAWalker2 validate -0.31 0.00067 NA
2 hsa-miR-23b-3p ABCC4 -0.53 0 0.96 0.00126 miRNAWalker2 validate; mirMAP -0.61 1.0E-5 NA
3 hsa-miR-26b-5p ABCC4 -1.11 0 0.96 0.00126 MirTarget; miRNATAP -0.46 0.00011 NA
4 hsa-miR-30c-1-3p ABCC4 -1.39 0 0.96 0.00126 MirTarget -0.21 0.01565 NA
5 hsa-miR-664a-3p ABCC4 0.49 0.00073 0.96 0.00126 mirMAP -0.29 0.00467 NA

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
1 ORGANIC ACID METABOLIC PROCESS 29 953 4.503e-19 2.095e-15
2 ANION TRANSMEMBRANE TRANSPORT 16 251 1.621e-15 3.771e-12
3 RESPONSE TO XENOBIOTIC STIMULUS 12 105 6.36e-15 9.865e-12
4 SMALL MOLECULE METABOLIC PROCESS 31 1767 9.514e-14 1.107e-10
5 ORGANIC ACID TRANSMEMBRANE TRANSPORT 11 103 1.97e-13 1.528e-10
6 TRANSMEMBRANE TRANSPORT 25 1098 1.756e-13 1.528e-10
7 DRUG METABOLIC PROCESS 8 39 1.856e-12 1.234e-09
8 ANION TRANSPORT 17 507 6.815e-12 3.523e-09
9 RESPONSE TO DRUG 16 431 6.74e-12 3.523e-09
10 ORGANIC ACID TRANSPORT 13 261 2.065e-11 9.61e-09
11 ION TRANSMEMBRANE TRANSPORT 20 822 2.422e-11 1.025e-08
12 MONOCARBOXYLIC ACID METABOLIC PROCESS 16 503 6.735e-11 2.612e-08
13 ORGANIC ANION TRANSPORT 14 387 2.271e-10 8.128e-08
14 ORGANIC HYDROXY COMPOUND TRANSPORT 10 155 4.102e-10 1.363e-07
15 ION TRANSPORT 22 1262 1.187e-09 3.684e-07
16 EPOXYGENASE P450 PATHWAY 5 18 6.108e-09 1.776e-06
17 ORGANONITROGEN COMPOUND METABOLIC PROCESS 25 1796 6.662e-09 1.824e-06
18 NITROGEN COMPOUND TRANSPORT 14 507 7.367e-09 1.904e-06
19 VITAMIN METABOLIC PROCESS 8 120 1.976e-08 4.84e-06
20 MONOCARBOXYLIC ACID TRANSPORT 8 124 2.558e-08 5.951e-06
21 FLAVONOID METABOLIC PROCESS 5 28 6.799e-08 1.506e-05
22 RESPONSE TO EXTRACELLULAR STIMULUS 12 441 1.144e-07 2.421e-05
23 PORPHYRIN CONTAINING COMPOUND METABOLIC PROCESS 5 36 2.546e-07 4.936e-05
24 OXIDATION REDUCTION PROCESS 16 898 2.489e-07 4.936e-05
25 COFACTOR METABOLIC PROCESS 10 334 6.006e-07 0.0001118
26 RESPONSE TO NUTRIENT 8 191 7.16e-07 0.0001281
27 LONG CHAIN FATTY ACID METABOLIC PROCESS 6 88 1.127e-06 0.0001942
28 RESPONSE TO ALCOHOL 10 362 1.246e-06 0.000207
29 ARACHIDONIC ACID METABOLIC PROCESS 5 50 1.372e-06 0.0002128
30 SODIUM ION TRANSPORT 7 144 1.368e-06 0.0002128
31 DEMETHYLATION 5 54 2.024e-06 0.0003037
32 TETRAPYRROLE METABOLIC PROCESS 5 57 2.655e-06 0.0003861
33 TERPENOID METABOLIC PROCESS 6 106 3.358e-06 0.0004735
34 STEROID METABOLIC PROCESS 8 237 3.596e-06 0.0004921
35 RESPONSE TO OXYGEN CONTAINING COMPOUND 18 1381 3.72e-06 0.0004946
36 MONOVALENT INORGANIC CATION TRANSPORT 10 435 6.384e-06 0.0008251
37 LIPID METABOLIC PROCESS 16 1158 6.909e-06 0.0008688
38 CARBOXYLIC ACID BIOSYNTHETIC PROCESS 8 270 9.356e-06 0.001062
39 EXOGENOUS DRUG CATABOLIC PROCESS 3 11 8.855e-06 0.001062
40 ORGANIC ACID BIOSYNTHETIC PROCESS 8 270 9.356e-06 0.001062
41 ISOPRENOID METABOLIC PROCESS 6 126 9.123e-06 0.001062
42 LACTATE TRANSPORT 3 12 1.177e-05 0.001217
43 CELLULAR RESPONSE TO ORGANIC CYCLIC COMPOUND 10 465 1.142e-05 0.001217
44 OXIDATIVE DEMETHYLATION 3 12 1.177e-05 0.001217
45 LACTATE TRANSMEMBRANE TRANSPORT 3 12 1.177e-05 0.001217
46 RESPONSE TO INORGANIC SUBSTANCE 10 479 1.476e-05 0.00148
47 URATE METABOLIC PROCESS 3 13 1.526e-05 0.00148
48 GLYCEROL TRANSPORT 3 13 1.526e-05 0.00148
49 FATTY ACID METABOLIC PROCESS 8 296 1.819e-05 0.001727
50 DRUG CATABOLIC PROCESS 3 14 1.937e-05 0.001767
51 CELLULAR WATER HOMEOSTASIS 3 14 1.937e-05 0.001767
52 WATER SOLUBLE VITAMIN METABOLIC PROCESS 5 88 2.264e-05 0.002004
53 RESPONSE TO TRANSITION METAL NANOPARTICLE 6 148 2.282e-05 0.002004
54 NEUROTRANSMITTER UPTAKE 3 15 2.415e-05 0.002081
55 CELLULAR AMINO ACID BIOSYNTHETIC PROCESS 5 93 2.959e-05 0.002503
56 CARBOHYDRATE TRANSPORT 5 95 3.279e-05 0.002724
57 ICOSANOID METABOLIC PROCESS 5 96 3.449e-05 0.002767
58 FATTY ACID DERIVATIVE METABOLIC PROCESS 5 96 3.449e-05 0.002767
59 HOMEOSTATIC PROCESS 16 1337 4.081e-05 0.003218
60 POLYOL TRANSPORT 3 18 4.295e-05 0.003276
61 QUATERNARY AMMONIUM GROUP TRANSPORT 3 18 4.295e-05 0.003276
62 DRUG TRANSMEMBRANE TRANSPORT 3 19 5.086e-05 0.003756
63 SMALL MOLECULE BIOSYNTHETIC PROCESS 9 443 5.035e-05 0.003756
64 WATER TRANSPORT 3 20 5.967e-05 0.004271
65 ORGANIC CATION TRANSPORT 3 20 5.967e-05 0.004271
66 UNSATURATED FATTY ACID METABOLIC PROCESS 5 109 6.34e-05 0.00447
67 AMMONIUM TRANSPORT 4 57 6.871e-05 0.004702
68 SINGLE ORGANISM CATABOLIC PROCESS 13 957 6.777e-05 0.004702
69 CELLULAR GLUCURONIDATION 3 22 8.016e-05 0.005406
70 SODIUM INDEPENDENT ORGANIC ANION TRANSPORT 3 23 9.193e-05 0.005941
71 GLUTAMINE METABOLIC PROCESS 3 23 9.193e-05 0.005941
72 REACTIVE OXYGEN SPECIES BIOSYNTHETIC PROCESS 3 23 9.193e-05 0.005941
73 STEROID CATABOLIC PROCESS 3 24 0.0001048 0.006678
74 GLUTAMINE FAMILY AMINO ACID METABOLIC PROCESS 4 65 0.0001151 0.007235
75 DRUG TRANSPORT 3 25 0.0001187 0.007366
76 CHEMICAL HOMEOSTASIS 12 874 0.0001206 0.007385
77 MONOSACCHARIDE METABOLIC PROCESS 6 202 0.0001287 0.00778
78 MODIFIED AMINO ACID TRANSPORT 3 26 0.0001338 0.007883
79 COFACTOR TRANSPORT 3 26 0.0001338 0.007883
80 GLUCURONATE METABOLIC PROCESS 3 27 0.0001502 0.008521
81 URONIC ACID METABOLIC PROCESS 3 27 0.0001502 0.008521
82 FLUID TRANSPORT 3 27 0.0001502 0.008521
83 WATER HOMEOSTASIS 4 70 0.0001536 0.008609
84 CELL VOLUME HOMEOSTASIS 3 28 0.0001677 0.00929
85 RESPONSE TO ETHANOL 5 136 0.0001802 0.009808
86 CELLULAR LIPID METABOLIC PROCESS 12 913 0.0001813 0.009808
87 FOLIC ACID CONTAINING COMPOUND METABOLIC PROCESS 3 29 0.0001865 0.009977
88 RESPONSE TO ORGANIC CYCLIC COMPOUND 12 917 0.0001888 0.009981
NumGOOverlapSizeP ValueAdj. P Value
1 ACTIVE TRANSMEMBRANE TRANSPORTER ACTIVITY 21 356 1.627e-19 1.511e-16
2 SECONDARY ACTIVE TRANSMEMBRANE TRANSPORTER ACTIVITY 15 233 1.169e-14 5.432e-12
3 ANION TRANSMEMBRANE TRANSPORTER ACTIVITY 16 293 1.832e-14 5.672e-12
4 ORGANIC HYDROXY COMPOUND TRANSMEMBRANE TRANSPORTER ACTIVITY 10 60 2.522e-14 5.857e-12
5 TRANSMEMBRANE TRANSPORTER ACTIVITY 24 997 1.844e-13 3.427e-11
6 ORGANIC ANION TRANSMEMBRANE TRANSPORTER ACTIVITY 12 178 3.78e-12 5.853e-10
7 ORGANIC ACID TRANSMEMBRANE TRANSPORTER ACTIVITY 11 142 6.993e-12 8.121e-10
8 SYMPORTER ACTIVITY 11 142 6.993e-12 8.121e-10
9 TRANSPORTER ACTIVITY 24 1276 3.464e-11 3.575e-09
10 OXIDOREDUCTASE ACTIVITY ACTING ON PAIRED DONORS WITH INCORPORATION OR REDUCTION OF MOLECULAR OXYGEN REDUCED FLAVIN OR FLAVOPROTEIN AS ONE DONOR AND INCORPORATION OF ONE ATOM OF OXYGEN 6 26 5.782e-10 5.372e-08
11 OXYGEN BINDING 6 47 2.53e-08 2.136e-06
12 TETRAPYRROLE BINDING 8 134 4.695e-08 3.635e-06
13 MONOOXYGENASE ACTIVITY 7 95 7.996e-08 5.714e-06
14 OXIDOREDUCTASE ACTIVITY ACTING ON PAIRED DONORS WITH INCORPORATION OR REDUCTION OF MOLECULAR OXYGEN 8 155 1.453e-07 9.639e-06
15 IRON ION BINDING 8 163 2.139e-07 1.325e-05
16 ACTIVE ION TRANSMEMBRANE TRANSPORTER ACTIVITY 8 171 3.088e-07 1.687e-05
17 OXIDOREDUCTASE ACTIVITY ACTING ON PAIRED DONORS WITH INCORPORATION OR REDUCTION OF MOLECULAR OXYGEN NAD P H AS ONE DONOR AND INCORPORATION OF ONE ATOM OF OXYGEN 5 37 2.935e-07 1.687e-05
18 OXIDOREDUCTASE ACTIVITY 14 719 5.472e-07 2.824e-05
19 CARBOHYDRATE TRANSPORTER ACTIVITY 5 44 7.161e-07 3.501e-05
20 MONOCARBOXYLIC ACID TRANSMEMBRANE TRANSPORTER ACTIVITY 5 45 8.032e-07 3.731e-05
21 SOLUTE SODIUM SYMPORTER ACTIVITY 5 51 1.517e-06 6.71e-05
22 SOLUTE CATION SYMPORTER ACTIVITY 6 99 2.253e-06 9.515e-05
23 STEROID HYDROXYLASE ACTIVITY 4 31 5.904e-06 0.0002385
24 LACTATE TRANSMEMBRANE TRANSPORTER ACTIVITY 3 11 8.855e-06 0.0003428
25 MONOVALENT INORGANIC CATION TRANSMEMBRANE TRANSPORTER ACTIVITY 9 366 1.125e-05 0.000418
26 SODIUM ION TRANSMEMBRANE TRANSPORTER ACTIVITY 6 136 1.412e-05 0.0005046
27 PROTEIN HOMODIMERIZATION ACTIVITY 12 722 1.91e-05 0.0006573
28 WATER TRANSMEMBRANE TRANSPORTER ACTIVITY 3 15 2.415e-05 0.0007478
29 POLYOL TRANSMEMBRANE TRANSPORTER ACTIVITY 3 15 2.415e-05 0.0007478
30 ARACHIDONIC ACID MONOOXYGENASE ACTIVITY 3 15 2.415e-05 0.0007478
31 PROTEIN DIMERIZATION ACTIVITY 15 1149 2.734e-05 0.0008193
32 ANION CATION SYMPORTER ACTIVITY 4 53 5.153e-05 0.001451
33 ADENYL NUCLEOTIDE BINDING 17 1514 5.015e-05 0.001451
34 RIBONUCLEOTIDE BINDING 19 1860 6.019e-05 0.001645
35 LIGASE ACTIVITY FORMING CARBON NITROGEN BONDS 4 56 6.408e-05 0.001701
36 COFACTOR TRANSPORTER ACTIVITY 3 21 6.942e-05 0.001743
37 SODIUM INDEPENDENT ORGANIC ANION TRANSMEMBRANE TRANSPORTER ACTIVITY 3 21 6.942e-05 0.001743
38 ALCOHOL TRANSMEMBRANE TRANSPORTER ACTIVITY 3 24 0.0001048 0.002561
39 AMMONIUM TRANSMEMBRANE TRANSPORTER ACTIVITY 3 27 0.0001502 0.003577
40 INORGANIC CATION TRANSMEMBRANE TRANSPORTER ACTIVITY 9 527 0.0001879 0.004266
41 IDENTICAL PROTEIN BINDING 14 1209 0.0001883 0.004266
42 ORGANIC ACID SODIUM SYMPORTER ACTIVITY 3 30 0.0002067 0.004572
43 GLUCURONOSYLTRANSFERASE ACTIVITY 3 34 0.0003013 0.006509
44 PDZ DOMAIN BINDING 4 90 0.0004038 0.008526
NumGOOverlapSizeP ValueAdj. P Value
1 INTRINSIC COMPONENT OF PLASMA MEMBRANE 22 1649 1.505e-07 5.101e-05
2 APICAL PLASMA MEMBRANE 10 292 1.747e-07 5.101e-05
3 MITOCHONDRION 21 1633 5.76e-07 0.0001121
4 APICAL PART OF CELL 10 361 1.215e-06 0.0001774
5 PLASMA MEMBRANE REGION 14 929 1.079e-05 0.001261
6 NUCLEAR OUTER MEMBRANE ENDOPLASMIC RETICULUM MEMBRANE NETWORK 14 1005 2.596e-05 0.002166
7 MEMBRANE REGION 15 1134 2.346e-05 0.002166
8 ENDOPLASMIC RETICULUM PART 14 1163 0.0001255 0.009161

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 ABC_transporters_hsa02010 4 45 2.684e-05 0.001396

Quest ID: d32e7281b5225e6b3d2dc98155dd0a0b