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-let-7a-5p TARBP2 -0 0.98266 -0.14 0.00414 TargetScan -0.11 0.00044 NA
2 hsa-miR-326 TARBP2 0.63 9.0E-5 -0.14 0.00414 miRanda -0.11 0 NA

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
1 POSITIVE REGULATION OF GENE EXPRESSION 23 1733 2.159e-10 1.005e-06
2 REGULATION OF CELLULAR AMIDE METABOLIC PROCESS 11 354 5.994e-09 1.395e-05
3 POSITIVE REGULATION OF BIOSYNTHETIC PROCESS 21 1805 1.853e-08 2.215e-05
4 POSITIVE REGULATION OF MULTI ORGANISM PROCESS 8 157 1.904e-08 2.215e-05
5 POSTTRANSCRIPTIONAL REGULATION OF GENE EXPRESSION 11 448 6.702e-08 6.236e-05
6 REGULATION OF VIRAL GENOME REPLICATION 6 75 8.731e-08 6.771e-05
7 REGULATION OF SYMBIOSIS ENCOMPASSING MUTUALISM THROUGH PARASITISM 8 205 1.505e-07 8.083e-05
8 POSITIVE REGULATION OF PROTEIN METABOLIC PROCESS 18 1492 1.563e-07 8.083e-05
9 POSTTRANSCRIPTIONAL GENE SILENCING 5 42 1.47e-07 8.083e-05
10 REGULATION OF KINASE ACTIVITY 13 776 3.172e-07 0.0001233
11 RESPONSE TO ORGANIC CYCLIC COMPOUND 14 917 3.179e-07 0.0001233
12 POSITIVE REGULATION OF VIRAL PROCESS 6 92 2.975e-07 0.0001233
13 REGULATION OF GENE SILENCING BY RNA 4 21 3.937e-07 0.0001308
14 REGULATION OF POSTTRANSCRIPTIONAL GENE SILENCING 4 21 3.937e-07 0.0001308
15 REGULATION OF PHOSPHORUS METABOLIC PROCESS 18 1618 5.221e-07 0.0001619
16 REGULATION OF MULTI ORGANISM PROCESS 10 470 1.046e-06 0.0003042
17 POSITIVE REGULATION OF VIRAL GENOME REPLICATION 4 30 1.767e-06 0.0004837
18 RIBONUCLEOPROTEIN COMPLEX SUBUNIT ORGANIZATION 7 199 1.913e-06 0.0004945
19 NEGATIVE REGULATION OF CELLULAR AMIDE METABOLIC PROCESS 6 131 2.386e-06 0.0005609
20 NEGATIVE REGULATION OF PROTEIN METABOLIC PROCESS 14 1087 2.411e-06 0.0005609
21 REGULATION OF TRANSFERASE ACTIVITY 13 946 2.918e-06 0.0006464
22 REGULATION OF CELL DIFFERENTIATION 16 1492 4.298e-06 0.000909
23 REGULATION OF CHROMOSOME SEGREGATION 5 85 5.146e-06 0.00104
24 POSITIVE REGULATION OF TRANSCRIPTION FROM RNA POLYMERASE II PROMOTER 13 1004 5.589e-06 0.00104
25 REGULATION OF PROTEIN MODIFICATION PROCESS 17 1710 5.522e-06 0.00104
26 PRE MIRNA PROCESSING 3 13 6.829e-06 0.001222
27 DEFENSE RESPONSE TO VIRUS 6 164 8.725e-06 0.001504
28 RESPONSE TO CORTICOSTEROID 6 176 1.305e-05 0.002169
29 SINGLE ORGANISM BEHAVIOR 8 384 1.619e-05 0.00258
30 REGULATION OF GENE SILENCING 4 52 1.663e-05 0.00258
31 NEURON PROJECTION MORPHOGENESIS 8 402 2.249e-05 0.003376
32 GROWTH 8 410 2.589e-05 0.003655
33 NEGATIVE REGULATION OF CATALYTIC ACTIVITY 11 829 2.629e-05 0.003655
34 RHYTHMIC PROCESS 7 298 2.671e-05 0.003655
35 CELL DEATH 12 1001 2.926e-05 0.003782
36 NEURON PROJECTION DEVELOPMENT 9 545 2.897e-05 0.003782
37 RESPONSE TO NITROGEN COMPOUND 11 859 3.641e-05 0.004344
38 DSRNA FRAGMENTATION 3 22 3.608e-05 0.004344
39 PRODUCTION OF SMALL RNA INVOLVED IN GENE SILENCING BY RNA 3 22 3.608e-05 0.004344
40 POSITIVE REGULATION OF PHOSPHATE METABOLIC PROCESS 12 1036 4.096e-05 0.004648
41 POSITIVE REGULATION OF PHOSPHORUS METABOLIC PROCESS 12 1036 4.096e-05 0.004648
42 RIBONUCLEOPROTEIN COMPLEX BIOGENESIS 8 440 4.274e-05 0.004735
43 REGULATION OF CATABOLIC PROCESS 10 731 4.968e-05 0.005376
44 CELL DEVELOPMENT 14 1426 5.218e-05 0.005518
45 DEVELOPMENTAL GROWTH 7 333 5.406e-05 0.005589
46 RESPONSE TO ORGANOPHOSPHORUS 5 139 5.587e-05 0.005651
47 REGULATION OF GENE EXPRESSION EPIGENETIC 6 229 5.729e-05 0.005672
48 NEGATIVE REGULATION OF MOLECULAR FUNCTION 12 1079 6.074e-05 0.005767
49 RESPONSE TO DSRNA 4 72 6.05e-05 0.005767
50 CELLULAR RESPONSE TO ORGANIC CYCLIC COMPOUND 8 465 6.302e-05 0.005865
51 REGULATION OF PROTEIN SERINE THREONINE KINASE ACTIVITY 8 470 6.792e-05 0.006197
52 NEGATIVE REGULATION OF CELL CYCLE PHASE TRANSITION 5 146 7.056e-05 0.006314
53 NEGATIVE REGULATION OF GENE EXPRESSION 14 1493 8.579e-05 0.007362
54 PROTEIN PHOSPHORYLATION 11 944 8.532e-05 0.007362
55 RESPONSE TO VIRUS 6 247 8.702e-05 0.007362
56 CELL PART MORPHOGENESIS 9 633 9.202e-05 0.007591
57 NEGATIVE REGULATION OF KINASE ACTIVITY 6 250 9.299e-05 0.007591
58 RESPONSE TO STEROID HORMONE 8 497 0.0001002 0.007908
59 CELL MORPHOGENESIS INVOLVED IN NEURON DIFFERENTIATION 7 368 0.0001011 0.007908
60 RESPONSE TO PURINE CONTAINING COMPOUND 5 158 0.0001025 0.007908
61 NEGATIVE REGULATION OF CELL PROLIFERATION 9 643 0.0001037 0.007908
62 CELL MORPHOGENESIS INVOLVED IN DIFFERENTIATION 8 513 0.0001246 0.009354
63 BEHAVIOR 8 516 0.0001297 0.009583
NumGOOverlapSizeP ValueAdj. P Value
1 DOUBLE STRANDED RNA BINDING 7 64 7.336e-10 6.815e-07
2 RNA BINDING 19 1598 7.941e-08 3.689e-05
3 MRNA BINDING 6 155 6.313e-06 0.001173
4 ADENOSINE DEAMINASE ACTIVITY 3 11 3.957e-06 0.001173
5 POLY A RNA BINDING 14 1170 5.665e-06 0.001173
6 MRNA 3 UTR BINDING 4 48 1.206e-05 0.001868
7 TRANSCRIPTIONAL ACTIVATOR ACTIVITY RNA POLYMERASE II TRANSCRIPTION REGULATORY REGION SEQUENCE SPECIFIC BINDING 7 315 3.803e-05 0.005047
8 PRE MRNA BINDING 3 24 4.723e-05 0.005484
NumGOOverlapSizeP ValueAdj. P Value
1 SITE OF POLARIZED GROWTH 6 149 5.03e-06 0.002937

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 Sphingolipid_signaling_pathway_hsa04071 5 118 2.549e-05 0.0009797
2 Autophagy_animal_hsa04140 5 128 3.768e-05 0.0009797
3 TGF_beta_signaling_pathway_hsa04350 4 84 0.0001105 0.001916
4 Wnt_signaling_pathway_hsa04310 4 146 0.0009083 0.01181
5 PI3K_Akt_signaling_pathway_hsa04151 5 352 0.003775 0.03474
6 Autophagy_other_hsa04136 2 32 0.004009 0.03474
7 Oocyte_meiosis_hsa04114 3 124 0.005873 0.04181
8 FoxO_signaling_pathway_hsa04068 3 132 0.006978 0.04181
9 Apelin_signaling_pathway_hsa04371 3 137 0.007728 0.04181
10 Signaling_pathways_regulating_pluripotency_of_stem_cells_hsa04550 3 139 0.008041 0.04181
11 Hippo_signaling_pathway_hsa04390 3 154 0.01062 0.05022
12 Necroptosis_hsa04217 3 164 0.01258 0.05452
13 Mitophagy_animal_hsa04137 2 65 0.0158 0.06319
14 Adherens_junction_hsa04520 2 72 0.01916 0.07116
15 NF_kappa_B_signaling_pathway_hsa04064 2 95 0.03206 0.1111
16 HIF_1_signaling_pathway_hsa04066 2 100 0.03521 0.1144
17 AMPK_signaling_pathway_hsa04152 2 121 0.04967 0.1519
18 Apoptosis_hsa04210 2 138 0.06267 0.181
19 mTOR_signaling_pathway_hsa04150 2 151 0.0733 0.2006
20 Cellular_senescence_hsa04218 2 160 0.08097 0.2048
21 Jak_STAT_signaling_pathway_hsa04630 2 162 0.08271 0.2048
22 Tight_junction_hsa04530 2 170 0.08978 0.2102
23 cAMP_signaling_pathway_hsa04024 2 198 0.1158 0.2429
24 Focal_adhesion_hsa04510 2 199 0.1168 0.2429
25 Regulation_of_actin_cytoskeleton_hsa04810 2 208 0.1255 0.2458

Quest ID: f70606dcbe57c08b38b0e29887e956a3