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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-let-7a-5p ASPM -0.4 2.0E-5 1.15 0 miRNAWalker2 validate -0.39 3.0E-5 NA
2 hsa-miR-192-5p ASPM -0.47 0 1.15 0 miRNAWalker2 validate -0.41 5.0E-5 NA
3 hsa-miR-26b-5p ASPM -0.63 0 1.15 0 miRNAWalker2 validate -0.59 0 NA
4 hsa-let-7b-5p AURKA -0.75 0 -0.28 0.00642 miRNAWalker2 validate -0.12 0.00522 NA
5 hsa-miR-30c-2-3p AURKA -0.79 0 -0.28 0.00642 MirTarget -0.14 8.0E-5 NA
6 hsa-let-7b-5p BIRC5 -0.75 0 1.55 0 miRNAWalker2 validate -0.28 0.00247 NA
7 hsa-miR-186-5p BIRC5 -0.52 0 1.55 0 mirMAP -0.44 0.0022 NA
8 hsa-miR-218-5p BIRC5 -0.98 0 1.55 0 miRTarBase; MirTarget -0.2 0.01392 25473903; 25900794; 26442524 Survivin BIRC5 was subsequently identified as an important cervical cancer target of miR-218 using in silico prediction mRNA profiling and quantitative real-time PCR qRT-PCR;miR-218 binds survivin BIRC5 mRNA 3'-UTR and down-regulated reporter luciferase activity;MiR-218 promoted apoptosis inhibited cell proliferation and caused cell cycle arrest in CRC cells by suppressing BIRC5 expression; In conclusion we demonstrated that high miR-218 expression had a positive prognostic value in 5-FU-based treatments for CRC patients and discovered a novel mechanism mediated by miR-218 to promote apoptosis and to function synergistically with 5-FU to promote chemosensitivity by suppressing BIRC5 and TS in CRC
9 hsa-miR-30c-5p BIRC5 -0.63 0 1.55 0 miRNAWalker2 validate -0.7 0 NA
10 hsa-miR-335-5p BIRC5 -0.5 0 1.55 0 miRNAWalker2 validate; MirTarget -0.42 0 23232114 Genetic variation in a miR 335 binding site in BIRC5 alters susceptibility to lung cancer in Chinese Han populations; In support of the postulation that the 3' UTR SNP may directly affect miRNA-binding site reporter gene assays indicated BIRC5 was a direct target of miR-335 and the rs2239680 T>C change resulted in altered regulation of BIRC5 expression; Our findings defined a 3' UTR SNP in human BIRC5 oncogene that may increase individual susceptibility to lung cancer probably by attenuating the interaction between miR-335 and BIRC5
11 hsa-miR-338-3p BIRC5 -0.32 0.03679 1.55 0 miRanda -0.29 0 NA
12 hsa-miR-421 BIRC5 -0.4 0.00042 1.55 0 miRanda; mirMAP -0.26 0.00212 NA
13 hsa-miR-542-3p BIRC5 0.23 0.17581 1.55 0 miRNAWalker2 validate; MirTarget; miRanda -0.2 0.00035 NA
14 hsa-miR-139-5p BUB1 -1.02 0 1.76 0 miRanda -0.53 0 NA
15 hsa-miR-186-5p BUB1 -0.52 0 1.76 0 miRNAWalker2 validate -0.69 0 NA
16 hsa-miR-324-5p BUB1 -0 0.96822 1.76 0 MirTarget -0.34 0.0001 NA
17 hsa-miR-542-3p BUB1 0.23 0.17581 1.76 0 miRanda -0.29 0 NA
18 hsa-let-7b-3p CCNA2 -0.84 0 0.48 0.00052 MirTarget -0.21 0.00181 NA
19 hsa-miR-130a-3p CCNA2 -0.74 0 0.48 0.00052 miRNATAP -0.11 0.03288 NA
20 hsa-miR-22-3p CCNA2 -0.1 0.18413 0.48 0.00052 MirTarget -0.21 0.00888 25596928 The sequence of miR-22 which is conserved in mice rats humans and other mammalians aligns with the sequence of 3'-UTR of CCNA2; Chenodeoxycholic acid treatment and miR-22 mimics reduced CCNA2 protein and increased the number of G0/G1 Huh7 and HCT116 cells; In humans the expression levels of miR-22 and CCNA2 are inversely correlated in liver and colon cancers
21 hsa-miR-27b-3p CCNA2 0.27 0.00111 0.48 0.00052 miRNATAP -0.22 0.00144 NA
22 hsa-miR-374b-5p CCNA2 -0.76 0 0.48 0.00052 mirMAP -0.27 0.00051 NA
23 hsa-miR-486-5p CCNA2 -2.71 0 0.48 0.00052 miRanda -0.11 4.0E-5 NA
24 hsa-miR-98-5p CCNA2 -0.33 3.0E-5 0.48 0.00052 miRNAWalker2 validate -0.62 0 NA
25 hsa-let-7a-5p CCNB2 -0.4 2.0E-5 0.89 0 miRNAWalker2 validate -0.35 0 NA
26 hsa-let-7b-5p CCNB2 -0.75 0 0.89 0 miRNAWalker2 validate -0.16 0.00398 NA
27 hsa-let-7c-5p CCNB2 -0.7 0 0.89 0 miRNAWalker2 validate -0.4 0 NA
28 hsa-let-7f-5p CCNB2 -0.29 0.03106 0.89 0 miRNAWalker2 validate -0.22 0 NA
29 hsa-miR-23b-3p CCNB2 0.37 1.0E-5 0.89 0 miRNAWalker2 validate -0.32 0 NA
30 hsa-miR-192-5p DLGAP5 -0.47 0 1.72 0 miRNAWalker2 validate -0.48 1.0E-5 NA
31 hsa-miR-192-5p KIF20A -0.47 0 1.55 0 miRNAWalker2 validate -0.33 0.00054 NA
32 hsa-miR-374a-5p KIF20A -0.67 0 1.55 0 MirTarget -0.35 0.00381 NA
33 hsa-miR-374b-5p KIF20A -0.76 0 1.55 0 MirTarget -0.53 0 NA
34 hsa-miR-185-5p NCAPG -0.39 0 0.95 0 MirTarget -0.55 0 NA
35 hsa-miR-30e-3p NCAPG -0.64 0 0.95 0 mirMAP -0.39 0 NA
36 hsa-miR-374a-5p NCAPG -0.67 0 0.95 0 mirMAP -0.34 0.003 NA
37 hsa-miR-374b-5p NCAPG -0.76 0 0.95 0 mirMAP -0.46 1.0E-5 NA
38 hsa-miR-421 NCAPG -0.4 0.00042 0.95 0 miRNAWalker2 validate -0.22 0.00182 NA
39 hsa-miR-139-5p TOP2A -1.02 0 1.46 0 miRanda -0.4 0 26079880 We identified that miR-139 a previous reported anti-metastatic microRNA targets 3'-untranslated region 3'UTR of TOP2a mRNA; Further more we revealed that the forced expression of miR-139 reduces the TOP2a expression at both mRNA and protein levels; And our functional experiments showed that the ectopic expression of miR-139 remarkably inhibits proliferation in luminal type breast cancer cells while exogenous TOP2a expression could rescue inhibition of cell proliferation mediated by miR-139
40 hsa-miR-186-5p TOP2A -0.52 0 1.46 0 miRNAWalker2 validate -0.41 0.00042 NA
41 hsa-miR-542-3p TOP2A 0.23 0.17581 1.46 0 miRanda -0.15 0.00081 NA
42 hsa-miR-7-5p TOP2A -3.13 0 1.46 0 miRNAWalker2 validate -0.2 0 NA
43 hsa-miR-491-5p TPX2 -0.49 0 1.43 0 miRanda -0.57 0 27053618; 26279431 miR 491 inhibits the proliferation invasion and migration of hepatocellular carcinoma cell via down regulating TPX2 expression; Overexpression of miR-491 in MHCC-97H cells markedly suppressed cell proliferation invasion and migration and downregulated the protein expression of TPX2; Correlation analysis showed that miR-491 level was negatively correlated with TPX2 expression level in HCC tissues; miR-491 inhibits HCC cell proliferation invasion and migration by downregulating the expression of TPX2;Low Expression of miR 491 Promotes Esophageal Cancer Cell Invasion by Targeting TPX2; The expression of miR-491 and candidate gene TPX2 in EC samples n=99 were detected by RT-PCR; Furthermore we verified that TPX2 was a target gene of miR-491 miR-491 may play a critical role in EC

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
1 CELL DIVISION 10 460 4.054e-16 9.432e-13
2 MITOTIC CELL CYCLE 11 766 2.427e-16 9.432e-13
3 ORGANELLE FISSION 10 496 8.66e-16 1.343e-12
4 MITOTIC NUCLEAR DIVISION 9 361 9.815e-15 1.02e-11
5 CELL CYCLE PROCESS 11 1081 1.096e-14 1.02e-11
6 CELL CYCLE 11 1316 9.627e-14 7.466e-11
7 REGULATION OF CELL CYCLE 9 949 5.932e-11 3.943e-08
8 REGULATION OF MITOTIC CELL CYCLE 7 468 1.118e-09 6.504e-07
9 SISTER CHROMATID SEGREGATION 5 176 2.207e-08 1.141e-05
10 CELL CYCLE CHECKPOINT 5 194 3.594e-08 1.672e-05
11 SPINDLE ASSEMBLY 4 70 4.457e-08 1.885e-05
12 NUCLEAR CHROMOSOME SEGREGATION 5 228 8.052e-08 3.122e-05
13 MICROTUBULE BASED PROCESS 6 522 1.27e-07 4.545e-05
14 CHROMOSOME SEGREGATION 5 272 1.938e-07 5.636e-05
15 REGULATION OF CELL DIVISION 5 272 1.938e-07 5.636e-05
16 REGULATION OF CELL CYCLE PROCESS 6 558 1.883e-07 5.636e-05
17 REGULATION OF CELL CYCLE PHASE TRANSITION 5 321 4.407e-07 0.0001206
18 MICROTUBULE CYTOSKELETON ORGANIZATION 5 348 6.57e-07 0.0001652
19 MITOTIC CELL CYCLE CHECKPOINT 4 139 7.099e-07 0.0001652
20 CELL CYCLE G2 M PHASE TRANSITION 4 138 6.897e-07 0.0001652
21 NEGATIVE REGULATION OF ORGANELLE ORGANIZATION 5 387 1.11e-06 0.0002459
22 REGULATION OF NUCLEAR DIVISION 4 163 1.342e-06 0.0002839
23 NEGATIVE REGULATION OF PROTEIN COMPLEX DISASSEMBLY 4 170 1.587e-06 0.0003211
24 REGULATION OF MICROTUBULE POLYMERIZATION OR DEPOLYMERIZATION 4 178 1.907e-06 0.0003696
25 POSITIVE REGULATION OF MITOTIC NUCLEAR DIVISION 3 51 2.541e-06 0.0004729
26 NEGATIVE REGULATION OF MITOTIC CELL CYCLE 4 199 2.971e-06 0.0005318
27 REGULATION OF PROTEIN COMPLEX DISASSEMBLY 4 217 4.191e-06 0.0007222
28 NEGATIVE REGULATION OF CYTOSKELETON ORGANIZATION 4 221 4.506e-06 0.0007379
29 POSITIVE REGULATION OF NUCLEAR DIVISION 3 62 4.599e-06 0.0007379
30 CHROMOSOME ORGANIZATION 6 1009 6.031e-06 0.0009354
31 REGULATION OF MICROTUBULE BASED PROCESS 4 243 6.561e-06 0.0009541
32 MITOTIC SPINDLE ORGANIZATION 3 69 6.357e-06 0.0009541
33 CELL CYCLE PHASE TRANSITION 4 255 7.939e-06 0.001119
34 REGULATION OF ORGANELLE ORGANIZATION 6 1178 1.474e-05 0.002017
35 NEGATIVE REGULATION OF CELLULAR COMPONENT ORGANIZATION 5 684 1.795e-05 0.002386
36 MITOTIC DNA INTEGRITY CHECKPOINT 3 100 1.944e-05 0.002512
37 POSITIVE REGULATION OF MITOTIC CELL CYCLE 3 123 3.613e-05 0.004543
38 CENTROSOME LOCALIZATION 2 18 4.188e-05 0.005128
39 POSITIVE REGULATION OF CELL DIVISION 3 132 4.461e-05 0.005322
40 CYTOSKELETON ORGANIZATION 5 838 4.774e-05 0.005554
41 ORGANELLE LOCALIZATION 4 415 5.372e-05 0.006096
42 NEGATIVE REGULATION OF CELL CYCLE PHASE TRANSITION 3 146 6.024e-05 0.006518
43 DNA INTEGRITY CHECKPOINT 3 146 6.024e-05 0.006518
44 REGULATION OF PROTEASOMAL UBIQUITIN DEPENDENT PROTEIN CATABOLIC PROCESS 3 148 6.273e-05 0.006553
45 NEGATIVE REGULATION OF CELL CYCLE 4 433 6.338e-05 0.006553
46 MEIOTIC CELL CYCLE PROCESS 3 152 6.791e-05 0.006869
47 SPINDLE CHECKPOINT 2 25 8.194e-05 0.008112
NumGOOverlapSizeP ValueAdj. P Value
1 KINASE BINDING 5 606 9.975e-06 0.009267
NumGOOverlapSizeP ValueAdj. P Value
1 MICROTUBULE CYTOSKELETON 9 1068 1.706e-10 9.962e-08
2 CYTOSKELETAL PART 9 1436 2.386e-09 6.968e-07
3 SPINDLE 6 289 3.758e-09 7.316e-07
4 CYTOSKELETON 9 1967 3.873e-08 4.524e-06
5 CONDENSED CHROMOSOME 5 195 3.687e-08 4.524e-06
6 CENTROSOME 6 487 8.42e-08 8.196e-06
7 MICROTUBULE ORGANIZING CENTER 6 623 3.606e-07 3.009e-05
8 SPINDLE POLE 4 126 4.789e-07 3.496e-05
9 MIDBODY 4 132 5.772e-07 3.745e-05
10 MICROTUBULE 5 405 1.388e-06 8.107e-05
11 SUPRAMOLECULAR FIBER 5 670 1.624e-05 0.000862
12 CENTRIOLE 3 102 2.063e-05 0.0009267
13 CONDENSED CHROMOSOME CENTROMERIC REGION 3 102 2.063e-05 0.0009267
14 PRONUCLEUS 2 15 2.876e-05 0.0012
15 CONDENSED NUCLEAR CHROMOSOME CENTROMERIC REGION 2 18 4.188e-05 0.00163
16 CHROMOSOME 5 880 6.034e-05 0.001958
17 MICROTUBULE ASSOCIATED COMPLEX 3 145 5.902e-05 0.001958
18 MICROTUBULE ORGANIZING CENTER PART 3 145 5.902e-05 0.001958
19 CHROMOSOME CENTROMERIC REGION 3 174 0.0001015 0.003118
20 NUCLEAR CHROMOSOME 4 523 0.0001318 0.003849

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 Cell_cycle_hsa04110 3 124 3.701e-05 0.0009623
2 Oocyte_meiosis_hsa04114 3 124 3.701e-05 0.0009623
3 Cellular_senescence_hsa04218 2 160 0.003336 0.05783

Quest ID: e2a7001f0b3ecba73feafa06e8a9eb03