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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-22-3p AGBL5 0.05 0.96778 0.09 0.87437 MirTarget; miRNATAP -0.16 1.0E-5 NA
2 hsa-miR-22-3p ARC 0.05 0.96778 -0.25 0.59666 mirMAP -0.31 0.00365 NA
3 hsa-miR-22-3p BCL9 0.05 0.96778 -0.05 0.93891 MirTarget; miRNATAP -0.13 0.00053 NA
4 hsa-miR-22-3p BMP7 0.05 0.96778 0.87 0.27108 miRNAWalker2 validate; miRTarBase -0.31 0.02757 NA
5 hsa-miR-22-3p BRSK2 0.05 0.96778 -0.33 0.54503 MirTarget; miRNATAP -0.3 0.01536 NA
6 hsa-miR-22-3p BTF3 0.05 0.96778 0.26 0.72879 miRNAWalker2 validate -0.22 0 NA
7 hsa-miR-22-3p CDCA7L 0.05 0.96778 0.09 0.86536 MirTarget -0.18 0.00014 NA
8 hsa-miR-22-3p CENPV 0.05 0.96778 0.12 0.77208 MirTarget -0.26 0.00232 NA
9 hsa-miR-22-3p CLUAP1 0.05 0.96778 -0 0.99355 mirMAP -0.22 0 NA
10 hsa-miR-22-3p CUL3 0.05 0.96778 -0.02 0.96661 miRNATAP -0.11 0 NA
11 hsa-miR-22-3p DAD1 0.05 0.96778 0.1 0.88498 MirTarget -0.11 0.00206 NA
12 hsa-miR-22-3p DNAJC27 0.05 0.96778 -0.11 0.69809 MirTarget -0.11 8.0E-5 NA
13 hsa-miR-22-3p DPF2 0.05 0.96778 0 0.99672 MirTarget; miRNATAP -0.11 0 NA
14 hsa-miR-22-3p DPY30 0.05 0.96778 0.43 0.41953 MirTarget -0.13 0.00011 NA
15 hsa-miR-22-3p EFR3B 0.05 0.96778 -0.18 0.60042 MirTarget -0.24 0.00133 NA
16 hsa-miR-22-3p GATM 0.05 0.96778 0.1 0.82038 MirTarget -0.17 0.00426 NA
17 hsa-miR-22-3p GPBP1 0.05 0.96778 -0.03 0.9575 MirTarget; miRNATAP -0.11 0.0001 NA
18 hsa-miR-22-3p HDAC4 0.05 0.96778 -0.28 0.54225 miRNAWalker2 validate; miRTarBase; miRNATAP -0.12 0.00279 20842113 Furthermore histone deacetylase 4 HDAC4 known to have critical roles in cancer development was proved to be directly targeted and regulated by miR-22; Furthermore HDAC4 was upregulated in miR-22-downregulated HCC tissues suggesting that downregulation of miR-22 might participate in HCC carcinogenesis and progression through potentiation of HDAC4 expression
19 hsa-miR-22-3p HMGB1 0.05 0.96778 0.04 0.95716 miRNAWalker2 validate -0.11 4.0E-5 24609901; 24752578 However possibly as a compensatory effect miR-22 was also upregulated during the chemotherapy and the overexpressed miR-22 targeted the 3' UTR of HMGB1 and inhibits the HMGB1-promoted autophagy; Our study suggests a complexity in the regulation of autophagy by miR-22 and HMGB1 during chemotherapy resistance in osteosarcoma;In this study we determined the targeting role of miR-22 to HMGB1 and the regulation of miR-22 on the HMGB1-mediated cell autophagy and on the cell proliferation migration and invasion of osteosarcoma cells
20 hsa-miR-22-3p IL17RD 0.05 0.96778 -0.08 0.87096 MirTarget; miRNATAP -0.3 0 NA
21 hsa-miR-22-3p JARID2 0.05 0.96778 -0.19 0.6793 miRNATAP -0.17 4.0E-5 NA
22 hsa-miR-22-3p KCNC1 0.05 0.96778 0.04 0.92914 miRNATAP -0.36 0.00029 NA
23 hsa-miR-22-3p KIAA1257 0.05 0.96778 -0.18 0.60566 mirMAP -0.29 0.00021 NA
24 hsa-miR-22-3p KIF6 0.05 0.96778 -0.19 0.56919 mirMAP -0.2 0.00571 NA
25 hsa-miR-22-3p KIRREL3 0.05 0.96778 -0.27 0.65027 MirTarget; miRNATAP -0.72 0 NA
26 hsa-miR-22-3p LEMD3 0.05 0.96778 0.22 0.61289 miRNAWalker2 validate -0.11 1.0E-5 NA
27 hsa-miR-22-3p LIG3 0.05 0.96778 -0.14 0.75549 MirTarget -0.12 0.00016 NA
28 hsa-miR-22-3p MAGI2 0.05 0.96778 -0.01 0.98026 MirTarget -0.14 0.00117 NA
29 hsa-miR-22-3p MAOA 0.05 0.96778 0.22 0.60833 miRNAWalker2 validate; miRTarBase -0.16 0.02673 NA
30 hsa-miR-22-3p MECOM 0.05 0.96778 0.1 0.8664 miRNATAP -0.18 0.00198 NA
31 hsa-miR-22-3p NHP2 0.05 0.96778 0.28 0.63721 MirTarget -0.16 1.0E-5 NA
32 hsa-miR-22-3p NUDT4 0.05 0.96778 0.31 0.51627 MirTarget; miRNATAP -0.15 0.00125 NA
33 hsa-miR-22-3p PBX1 0.05 0.96778 0.16 0.80758 MirTarget -0.19 0 NA
34 hsa-miR-22-3p PEX5 0.05 0.96778 -0.05 0.913 miRNAWalker2 validate -0.14 1.0E-5 NA
35 hsa-miR-22-3p PHC1 0.05 0.96778 -0.28 0.57053 MirTarget -0.17 9.0E-5 NA
36 hsa-miR-22-3p PLAGL2 0.05 0.96778 -0.05 0.92959 miRNATAP -0.12 0.0034 NA
37 hsa-miR-22-3p PLCXD3 0.05 0.96778 -0.59 0.36592 miRNATAP -0.44 0.00309 NA
38 hsa-miR-22-3p PLEKHG4B 0.05 0.96778 -0.66 0.21379 mirMAP -0.3 0.00017 NA
39 hsa-miR-22-3p POGK 0.05 0.96778 -0.01 0.98463 MirTarget -0.11 1.0E-5 NA
40 hsa-miR-22-3p PRRT2 0.05 0.96778 -0.04 0.89765 miRNATAP -0.24 0.00069 NA
41 hsa-miR-22-3p PTMS 0.05 0.96778 0.19 0.81201 miRNAWalker2 validate; miRTarBase -0.12 0.00135 NA
42 hsa-miR-22-3p RAB28 0.05 0.96778 0.01 0.98945 MirTarget -0.11 0.00021 NA
43 hsa-miR-22-3p RBMXL1 0.05 0.96778 -0.09 0.85531 MirTarget -0.14 0 NA
44 hsa-miR-22-3p RPL13 0.05 0.96778 0.47 0.60357 MirTarget -0.22 0 NA
45 hsa-miR-22-3p RPL24 0.05 0.96778 0.42 0.5729 miRNAWalker2 validate -0.28 0 NA
46 hsa-miR-22-3p RPL35A 0.05 0.96778 0.45 0.59489 miRNAWalker2 validate -0.24 0 NA
47 hsa-miR-22-3p RPS2 0.05 0.96778 0.21 0.80351 miRNAWalker2 validate -0.19 0 NA
48 hsa-miR-22-3p RPS4X 0.05 0.96778 0.32 0.73518 miRNAWalker2 validate -0.26 0 NA
49 hsa-miR-22-3p RPSA 0.05 0.96778 0.29 0.66366 miRNAWalker2 validate -0.2 1.0E-5 NA
50 hsa-miR-22-3p RSBN1 0.05 0.96778 -0.15 0.73194 MirTarget; miRNATAP -0.17 0 NA
51 hsa-miR-22-3p SCYL3 0.05 0.96778 0.06 0.86936 MirTarget -0.11 0 NA
52 hsa-miR-22-3p SEPHS1 0.05 0.96778 0.07 0.90411 MirTarget; miRNATAP -0.11 0.00127 NA
53 hsa-miR-22-3p SESN1 0.05 0.96778 0.22 0.56853 MirTarget -0.17 0 NA
54 hsa-miR-22-3p SLC39A10 0.05 0.96778 -0.03 0.95139 miRNATAP -0.19 0 NA
55 hsa-miR-22-3p SOX13 0.05 0.96778 0.04 0.94635 MirTarget -0.14 0.00108 NA
56 hsa-miR-22-3p SYT13 0.05 0.96778 -1 0.06543 MirTarget -0.34 0.00188 NA
57 hsa-miR-22-3p TCEAL1 0.05 0.96778 0.06 0.88381 miRNAWalker2 validate; miRTarBase -0.14 1.0E-5 NA
58 hsa-miR-22-3p TMEM155 0.05 0.96778 0.12 0.7865 MirTarget -0.28 0.00214 NA
59 hsa-miR-22-3p TMSB15B 0.05 0.96778 -0.56 0.16149 MirTarget -0.35 0.00011 NA
60 hsa-miR-22-3p TP73 0.05 0.96778 -0.34 0.4121 mirMAP -0.31 0.00072 NA
61 hsa-miR-22-3p TRIM13 0.05 0.96778 0.26 0.54366 MirTarget -0.11 3.0E-5 NA
62 hsa-miR-22-3p TRIM46 0.05 0.96778 -0.19 0.5679 MirTarget -0.12 0.04827 NA
63 hsa-miR-22-3p TRUB1 0.05 0.96778 0.38 0.42588 MirTarget; miRNATAP -0.11 0.00014 NA
64 hsa-miR-22-3p UNC119B 0.05 0.96778 -0.26 0.61931 MirTarget -0.23 0 NA
65 hsa-miR-22-3p WARS2 0.05 0.96778 -0 0.99104 MirTarget -0.14 2.0E-5 NA
66 hsa-miR-22-3p WASF1 0.05 0.96778 0.32 0.46822 MirTarget; miRNATAP -0.22 0.00011 NA
67 hsa-miR-22-3p WNK2 0.05 0.96778 -0.52 0.36231 mirMAP -0.23 0.0077 NA
68 hsa-miR-22-3p ZBTB39 0.05 0.96778 -0.16 0.68987 MirTarget; miRNATAP -0.14 6.0E-5 NA
69 hsa-miR-22-3p ZFYVE9 0.05 0.96778 -0.16 0.73484 MirTarget; miRNATAP -0.1 0.00357 NA

Over-represented Gene Ontology Biological Process

NumGOOverlapSizeP ValueAdj. P Value
1 ESTABLISHMENT OF PROTEIN LOCALIZATION TO ENDOPLASMIC RETICULUM 6 104 1.571e-06 0.003656
2 PROTEIN TARGETING TO MEMBRANE 7 157 1.152e-06 0.003656
3 PROTEIN LOCALIZATION TO ENDOPLASMIC RETICULUM 6 123 4.181e-06 0.00389
4 ESTABLISHMENT OF PROTEIN LOCALIZATION TO MEMBRANE 8 264 3.457e-06 0.00389
5 NUCLEAR TRANSCRIBED MRNA CATABOLIC PROCESS NONSENSE MEDIATED DECAY 6 118 3.286e-06 0.00389
6 PROTEIN LOCALIZATION TO MEMBRANE 9 376 5.588e-06 0.004334
7 MULTI ORGANISM METABOLIC PROCESS 6 138 8.117e-06 0.005396
8 TRANSLATIONAL INITIATION 6 146 1.121e-05 0.006519
NumGOOverlapSizeP ValueAdj. P Value
NumGOOverlapSizeP ValueAdj. P Value
1 CYTOSOLIC RIBOSOME 6 113 2.554e-06 0.001491
2 RIBOSOMAL SUBUNIT 6 163 2.096e-05 0.00612

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 p53_signaling_pathway_hsa04115 2 68 0.02308 0.8867
2 TGF_beta_signaling_pathway_hsa04350 2 84 0.0341 0.8867
3 Hippo_signaling_pathway_hsa04390 2 154 0.09901 1

Quest ID: 3cf2288274091331d9e6d85b7f112bba