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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-140-3p UBE2C -1.26 0 4.42 0 miRNAWalker2 validate; miRNATAP -0.6 0 NA
2 hsa-miR-320a UBE2C -0.29 0.00142 4.42 0 miRanda -0.18 0.03879 NA
NumGOOverlapSizeP ValueAdj. P Value
1 REGULATION OF CELL CYCLE 20 949 3.092e-10 1.439e-06
2 PROTEIN MODIFICATION BY SMALL PROTEIN CONJUGATION OR REMOVAL 18 873 4.001e-09 5.85e-06
3 RESPONSE TO HORMONE 18 893 5.699e-09 5.85e-06
4 REGULATION OF CELL CYCLE G1 S PHASE TRANSITION 9 147 5.16e-09 5.85e-06
5 RESPONSE TO OXYGEN CONTAINING COMPOUND 22 1381 6.286e-09 5.85e-06
6 RESPONSE TO ENDOGENOUS STIMULUS 22 1450 1.527e-08 1.015e-05
7 PROTEIN UBIQUITINATION 15 629 1.432e-08 1.015e-05
8 RESPONSE TO LIPID 17 888 3.468e-08 2.017e-05
9 REGULATION OF CELL CYCLE PHASE TRANSITION 11 321 3.994e-08 2.065e-05
10 RESPONSE TO ORGANIC CYCLIC COMPOUND 17 917 5.527e-08 2.572e-05
11 NEGATIVE REGULATION OF CELL CYCLE G1 S PHASE TRANSITION 7 98 9.919e-08 4.196e-05
12 RESPONSE TO NITROGEN COMPOUND 16 859 1.365e-07 5.293e-05
13 MITOTIC CELL CYCLE 15 766 1.885e-07 6.749e-05
14 REGULATION OF PROTEIN CATABOLIC PROCESS 11 393 3.066e-07 0.0001019
15 RESPONSE TO STEROID HORMONE 12 497 4.122e-07 0.0001128
16 PROTEIN POLYUBIQUITINATION 9 243 3.913e-07 0.0001128
17 CELL CYCLE 19 1316 4.001e-07 0.0001128
18 RESPONSE TO METAL ION 10 333 5.844e-07 0.000136
19 POSITIVE REGULATION OF CELL CYCLE 10 332 5.686e-07 0.000136
20 CELL CYCLE PROCESS 17 1081 5.718e-07 0.000136
21 NEGATIVE REGULATION OF CELL DEATH 15 872 9.756e-07 0.000212
22 PROTEIN K48 LINKED UBIQUITINATION 5 47 1.002e-06 0.000212
23 REGULATION OF CELL CYCLE PROCESS 12 558 1.393e-06 0.0002819
24 NEGATIVE REGULATION OF CELL CYCLE PHASE TRANSITION 7 146 1.5e-06 0.0002909
25 NEGATIVE REGULATION OF CELL CYCLE PROCESS 8 214 1.684e-06 0.0003134
26 CELLULAR RESPONSE TO STEROID HORMONE STIMULUS 8 218 1.933e-06 0.0003445
27 REGULATION OF CYCLIN DEPENDENT PROTEIN KINASE ACTIVITY 6 97 1.999e-06 0.0003445
28 NEGATIVE REGULATION OF CELL COMMUNICATION 17 1192 2.195e-06 0.0003647
29 RESPONSE TO PEPTIDE 10 404 3.326e-06 0.0005336
30 REGULATION OF CATABOLIC PROCESS 13 731 3.966e-06 0.0006151
31 CELLULAR RESPONSE TO STRESS 19 1565 5.311e-06 0.0007971
32 CELLULAR RESPONSE TO ENDOGENOUS STIMULUS 15 1008 5.795e-06 0.0008427
33 NEGATIVE REGULATION OF CELL CYCLE 10 433 6.131e-06 0.0008644
34 POSITIVE REGULATION OF PROTEIN CATABOLIC PROCESS 8 263 7.726e-06 0.001053
35 INTRACELLULAR STEROID HORMONE RECEPTOR SIGNALING PATHWAY 5 71 7.917e-06 0.001053
36 CELLULAR RESPONSE TO HORMONE STIMULUS 11 552 8.239e-06 0.001065
37 STEROID HORMONE MEDIATED SIGNALING PATHWAY 6 125 8.715e-06 0.001077
38 REGULATION OF CELL DEATH 18 1472 9.027e-06 0.001077
39 PROSTATE GLAND GROWTH 3 11 8.855e-06 0.001077
40 CELL DIVISION 10 460 1.04e-05 0.001127
41 CELLULAR RESPONSE TO LIPID 10 457 9.821e-06 0.001127
42 MITOTIC NUCLEAR DIVISION 9 361 1.008e-05 0.001127
43 REGULATION OF CELLULAR PROTEIN CATABOLIC PROCESS 8 274 1.041e-05 0.001127
44 CELLULAR RESPONSE TO ORGANIC CYCLIC COMPOUND 10 465 1.142e-05 0.001188
45 NEGATIVE REGULATION OF MITOTIC CELL CYCLE 7 199 1.16e-05 0.001188
46 PROTEOLYSIS 16 1208 1.175e-05 0.001188
47 REGULATION OF MITOTIC CELL CYCLE 10 468 1.207e-05 0.001195
48 PROTEIN CATABOLIC PROCESS 11 579 1.289e-05 0.001224
49 NEGATIVE REGULATION OF RESPONSE TO STIMULUS 17 1360 1.27e-05 0.001224
50 REGULATION OF EPITHELIAL CELL PROLIFERATION 8 285 1.385e-05 0.001289
51 RESPONSE TO INORGANIC SUBSTANCE 10 479 1.476e-05 0.001346
52 REGULATION OF PHOSPHATIDYLINOSITOL 3 KINASE SIGNALING 6 138 1.535e-05 0.001373
53 REGULATION OF PROTEOLYSIS 12 711 1.641e-05 0.001441
54 PROSTATE GLAND DEVELOPMENT 4 41 1.846e-05 0.00159
55 ORGANELLE FISSION 10 496 1.991e-05 0.001685
56 POSITIVE REGULATION OF CATABOLIC PROCESS 9 395 2.058e-05 0.00171
57 RESPONSE TO ABIOTIC STIMULUS 14 1024 3.19e-05 0.002604
58 HORMONE MEDIATED SIGNALING PATHWAY 6 158 3.299e-05 0.002647
59 NEGATIVE REGULATION OF CELL PROLIFERATION 11 643 3.387e-05 0.002671
60 POSITIVE REGULATION OF PROTEASOMAL PROTEIN CATABOLIC PROCESS 5 98 3.809e-05 0.002954
61 REGULATION OF KINASE ACTIVITY 12 776 3.872e-05 0.002954
62 POSITIVE REGULATION OF PROTEIN METABOLIC PROCESS 17 1492 4.172e-05 0.003131
63 PROTEIN MONOUBIQUITINATION 4 51 4.424e-05 0.003267
64 CELLULAR RESPONSE TO OXYGEN CONTAINING COMPOUND 12 799 5.136e-05 0.003734
65 POSITIVE REGULATION OF ERK1 AND ERK2 CASCADE 6 172 5.304e-05 0.003797
66 CELLULAR RESPONSE TO ORGANIC SUBSTANCE 19 1848 5.512e-05 0.003886
67 REGULATION OF TRANSFERASE ACTIVITY 13 946 6.025e-05 0.004184
68 RESPONSE TO OXIDATIVE STRESS 8 352 6.218e-05 0.004255
69 REGULATION OF PROTEASOMAL PROTEIN CATABOLIC PROCESS 6 181 7.04e-05 0.004747
70 REGULATION OF APOPTOTIC SIGNALING PATHWAY 8 363 7.708e-05 0.005124
71 POSITIVE REGULATION OF PHOSPHATIDYLINOSITOL 3 KINASE SIGNALING 4 62 9.564e-05 0.006268
72 POSITIVE REGULATION OF CELLULAR PROTEIN CATABOLIC PROCESS 6 192 9.747e-05 0.006299
73 CELL CYCLE CHECKPOINT 6 194 0.0001032 0.006577
74 REGULATION OF TRANSCRIPTION FROM RNA POLYMERASE II PROMOTER 18 1784 0.0001156 0.007266
75 POSITIVE REGULATION OF INTRACELLULAR SIGNAL TRANSDUCTION 12 876 0.0001232 0.007545
76 NEGATIVE REGULATION OF APOPTOTIC SIGNALING PATHWAY 6 200 0.0001219 0.007545
77 RESPONSE TO UV 5 126 0.000126 0.007612
78 REGULATION OF SISTER CHROMATID SEGREGATION 4 67 0.0001295 0.007725
79 ORGAN GROWTH 4 68 0.0001372 0.008038
80 GLAND DEVELOPMENT 8 395 0.0001382 0.008038
81 PROTEIN K11 LINKED UBIQUITINATION 3 27 0.0001502 0.008626
82 REGULATION OF CELL PROLIFERATION 16 1496 0.0001539 0.008732
83 PROTEIN UBIQUITINATION INVOLVED IN UBIQUITIN DEPENDENT PROTEIN CATABOLIC PROCESS 5 134 0.0001681 0.009426
84 REPRODUCTIVE SYSTEM DEVELOPMENT 8 408 0.0001724 0.009552
85 G1 DNA DAMAGE CHECKPOINT 4 73 0.0001807 0.009893
NumGOOverlapSizeP ValueAdj. P Value
1 UBIQUITIN LIKE PROTEIN TRANSFERASE ACTIVITY 13 420 6.977e-09 6.482e-06
2 LIGASE ACTIVITY 10 406 3.474e-06 0.001614
3 UBIQUITIN LIKE PROTEIN LIGASE BINDING 8 264 7.943e-06 0.00246
NumGOOverlapSizeP ValueAdj. P Value
1 UBIQUITIN LIGASE COMPLEX 9 262 7.348e-07 0.0004291
2 TRANSFERASE COMPLEX 13 703 2.588e-06 0.0007556
3 CATALYTIC COMPLEX 15 1038 8.245e-06 0.001605

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 FoxO_signaling_pathway_hsa04068 7 132 7.613e-07 3.959e-05
2 p53_signaling_pathway_hsa04115 5 68 6.396e-06 0.0001427
3 PI3K_Akt_signaling_pathway_hsa04151 9 352 8.234e-06 0.0001427
4 Cellular_senescence_hsa04218 6 160 3.54e-05 0.0004365
5 HIF_1_signaling_pathway_hsa04066 5 100 4.197e-05 0.0004365
6 Endocytosis_hsa04144 5 244 0.00251 0.02176
7 Jak_STAT_signaling_pathway_hsa04630 4 162 0.003547 0.02635
8 Apoptosis_multiple_species_hsa04215 2 33 0.007151 0.04225
9 Focal_adhesion_hsa04510 4 199 0.007312 0.04225
10 Sphingolipid_signaling_pathway_hsa04071 3 118 0.01067 0.05348
11 Cell_cycle_hsa04110 3 124 0.01219 0.05348
12 Ras_signaling_pathway_hsa04014 4 232 0.01234 0.05348
13 Hedgehog_signaling_pathway_hsa04340 2 47 0.01414 0.05656
14 Calcium_signaling_pathway_hsa04020 3 182 0.0332 0.1233
15 ErbB_signaling_pathway_hsa04012 2 85 0.04253 0.1471
16 Gap_junction_hsa04540 2 88 0.04528 0.1471
17 NF_kappa_B_signaling_pathway_hsa04064 2 95 0.05191 0.1588
18 TNF_signaling_pathway_hsa04668 2 108 0.06509 0.188
19 Oocyte_meiosis_hsa04114 2 124 0.08264 0.216
20 Cytokine_cytokine_receptor_interaction_hsa04060 3 270 0.0861 0.216
21 Autophagy_animal_hsa04140 2 128 0.08724 0.216
22 Apoptosis_hsa04210 2 138 0.09904 0.2263
23 MAPK_signaling_pathway_hsa04010 3 295 0.1052 0.2263
24 Phospholipase_D_signaling_pathway_hsa04072 2 146 0.1088 0.2263
25 Hippo_signaling_pathway_hsa04390 2 154 0.1188 0.2376
26 Tight_junction_hsa04530 2 170 0.1394 0.2685
27 Rap1_signaling_pathway_hsa04015 2 206 0.1882 0.3374

Quest ID: 17fb7949caf21ec632df53fbba8a3aa3