Explanation
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
| 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-7b-3p | PTEN | -0.25 | 0.19025 | -0.14 | 0.7904 | mirMAP | -0.14 | 0.02364 | NA | |
| 2 | hsa-let-7f-1-3p | PTEN | -0.3 | 0.11053 | -0.14 | 0.7904 | mirMAP | -0.11 | 0.03798 | NA | |
| 3 | hsa-miR-125a-3p | PTEN | 0.04 | 0.82854 | -0.14 | 0.7904 | miRanda | -0.52 | 0.00031 | NA | |
| 4 | hsa-miR-130b-3p | PTEN | 0.13 | 0.49341 | -0.14 | 0.7904 | MirTarget; miRNATAP | -0.52 | 0.00408 | 26837847; 25637514 | The miR 130 family promotes cell migration and invasion in bladder cancer through FAK and Akt phosphorylation by regulating PTEN; In clinical bladder cancer specimens downregulation of PTEN was found to be closely correlated with miR-130 family expression levels;MiR 130b plays an oncogenic role by repressing PTEN expression in esophageal squamous cell carcinoma cells; We confirmed that miR-130b interacted with the 3'-untranslated region of PTEN and that an increase in the expression level of miR-130b negatively affected the protein level of PTEN; However the dysregulation of miR-130b had no obvious impact on PTEN mRNA; As Akt is a downstream effector of PTEN we explored if miR-130b affected Akt expression and found that miR-130b indirectly regulated the level of phosphorylated Akt while total Akt protein remained unchanged; The results indicate that miR-130b plays an oncogenic role in ESCC cells by repressing PTEN expression and Akt phosphorylation which would be helpful in developing miRNA-based treatments for ESCC |
| 5 | hsa-miR-141-3p | PTEN | 0.09 | 0.71333 | -0.14 | 0.7904 | miRNAWalker2 validate; miRTarBase; TargetScan; miRNATAP | -1.13 | 0.00135 | 27644195; 24742567 | Involvement of microRNA 141 3p in 5 fluorouracil and oxaliplatin chemo resistance in esophageal cancer cells via regulation of PTEN; Western blot exhibited altered protein levels of PTEN Akt and PI3k with miR-141-3p inhibitor; An inverse correlation between PTEN expression and miR-141-3p expression was also observed in tissue samples; Our study demonstrated that miR-141-3p contributed to an acquired chemo-resistance through PTEN modulation both in vitro and in vivo;PTEN might be a potential target of miR-141 and miR-200a in endometrial carcinogenesis |
| 6 | hsa-miR-150-3p | PTEN | 0.14 | 0.49139 | -0.14 | 0.7904 | mirMAP | -0.65 | 0.0001 | NA | |
| 7 | hsa-miR-188-5p | PTEN | 0.06 | 0.76468 | -0.14 | 0.7904 | MirTarget; PITA; miRNATAP | -0.84 | 0 | NA | |
| 8 | hsa-miR-198 | PTEN | 0.16 | 0.35856 | -0.14 | 0.7904 | MirTarget; PITA | -0.22 | 0.00928 | NA | |
| 9 | hsa-miR-300 | PTEN | -0.31 | 0.12146 | -0.14 | 0.7904 | mirMAP | -0.08 | 0.02894 | NA | |
| 10 | hsa-miR-30d-3p | PTEN | 0.01 | 0.9725 | -0.14 | 0.7904 | MirTarget; miRNATAP | -0.38 | 0.00067 | NA | |
| 11 | hsa-miR-30d-5p | PTEN | 0.01 | 0.98104 | -0.14 | 0.7904 | mirMAP | -0.93 | 0.00733 | NA | |
| 12 | hsa-miR-486-5p | PTEN | 0.15 | 0.41299 | -0.14 | 0.7904 | MirTarget; PITA; miRanda; miRNATAP | -0.32 | 0.00093 | NA | |
| 13 | hsa-miR-494-3p | PTEN | 0.06 | 0.80597 | -0.14 | 0.7904 | miRNAWalker2 validate; miRTarBase; MirTarget | -0.84 | 0 | 25861022; 26045065; 25662849; 26040900; 25738254 | Expression and clinical evidence of miR 494 and PTEN in non small cell lung cancer; The aim of this study was to explore the expression and clinical significance of miR-494 and PTEN phosphatase and tensin homologue deleted on chromosome ten in non-small cell lung cancer NSCLC; Immunohistochemistry for PTEN and in situ hybridization ISH for miR-494 were performed in 92 NSCLC tissues and 10 normal lung tissues to detect their expression and correlation between their expression with clinical characteristics and prognosis was analyzed; The positive expression of PTEN protein in the lung carcinoma tissues was significantly lower than that in the normal lung tissues P = 0.013 while the level of miR-494 expression was negatively correlated with PTEN expression r = -0.577 P < 0.01; Patients with over-expression of miR-494 had a shorter overall survival OS while the negative group of PTEN was correlated with poor OS; MiR-494 over-expression and low PTEN expression are closely related to tumor p-TNM staging and lymph node metastasis differentiation and OS; Combined detection of PTEN and miR-494 can aid in determining malignancy degree and the prognosis of patients with NSCLC;miR 494 promotes cell proliferation migration and invasion and increased sorafenib resistance in hepatocellular carcinoma by targeting PTEN; Mechanistic investigations revealed that miR-494 suppressed the expression of PTEN but increased the expression of PI3K and p-Akt which contribute to the promotion of proliferation migration and invasion and increased sorafenib resistance to HCC cell lines;Quantitative reverse transcription PCR and Western blotting analysis revealed that the expression of PTEN was increased after downexpression of miR-494-3p in glioma cells U87 and U251 miR-494-3p inhibitor could prevent migration invasion proliferation and promote apotosis in gliomas through PTEN/AKT pathway;The angiogenic effect of miR-494 was mediated by the targeting of PTEN and the subsequent activation of Akt/eNOS pathway;MicroRNA 494 promotes cervical cancer proliferation through the regulation of PTEN; In the present study we analyzed the expression of miR-494 in -with PTEN expression and clinicopathological data of cervical cancer patients; miR-494 upregulation was significantly associated with PTEN downregulation adverse clinicopathological characteristics poor overall and progression-free survival and poor prognosis; In vitro experiments showed that inhibition of miR-494 suppressed cell proliferation and growth by directly targeting the 3'-untranslated region 3'-UTR of PTEN mRNA |
| 14 | hsa-miR-548c-3p | PTEN | 1.21 | 3.0E-5 | -0.14 | 0.7904 | PITA; mirMAP | -0.07 | 0.00185 | NA | |
| 15 | hsa-miR-548c-5p | PTEN | -0.16 | 0.33949 | -0.14 | 0.7904 | PITA; mirMAP | -0.15 | 0.02878 | NA | |
| 16 | hsa-miR-622 | PTEN | 0.18 | 0.33128 | -0.14 | 0.7904 | PITA; miRNATAP | -0.43 | 2.0E-5 | NA | |
| 17 | hsa-miR-631 | PTEN | -0.08 | 0.66864 | -0.14 | 0.7904 | PITA | -0.26 | 0.00251 | NA | |
| 18 | hsa-miR-92a-3p | PTEN | 0.03 | 0.87892 | -0.14 | 0.7904 | MirTarget; miRNATAP | -0.9 | 0.012 | 26432332; 25515201; 24137349; 23546593; 23133552; 24026406 | Downregulation of PTEN could mimic the same effects of miR-92a mimic in NSCLC cells and rescue the effects on NSCLC cells induced by miR-92a inhibitor; Taken together these findings suggested that miR-92a could promote growth metastasis and chemoresistance in NSCLC cells at least partially by targeting PTEN;MiR 92a Promotes Cell Metastasis of Colorectal Cancer Through PTEN Mediated PI3K/AKT Pathway; The expression of miR-92a PTEN and E-cadherin was analyzed by real-time PCR; In addition there was a negative correlation between levels of miR-92a and the PTEN gene p < 0.0001; The association of levels of miR-92a and PTEN with tumor cell migration in CRC was also confirmed in CRC cell models;MicroRNA miR-92 is overexpressed in a number of tumors and has been proven to negatively regulate a number of tumor suppressor genes including phosphatase and tensin homologue PTEN; PTEN protein expression was decreased in the SiHa cells that were transfected with the miR-92 mimic; The data indicated that miR-92 may increase the migration and invasion of SiHa cells partially through the downregulation of PTEN protein expression;Expression and significance of PTEN and miR 92 in hepatocellular carcinoma; Immunohistochemistry streptavidin-peroxidase SP and quantitative reverse transcriptase-polymerase chain reaction qRT‑PCR were used to detect the expression of PTEN and miR-92 in 15 cases of HCC and the corresponding paracancerous tissues; The correlation between PTEN and miR-92 was analyzed; Additionally the mRNA levels of PTEN and miR-92 showed a significantly negative correlation with each other r=-0.858 P<0.05; In conclusion PTEN and miR-92 have different roles in the development of HCC; The combined detection of PTEN and miR-92 may provide critical clinical evidence for the early diagnosis and prognosis of HCC;PTEN mRNA correlated inversely with miR-92a and members of the miR-17 and miR-130/301 families;The expression levels of miR-92a and phosphatase and tensin homologue PTEN were detected by qRT-PCR and western blot; In addition the regulation of PTEN by miR-92a was evaluated by qRT-PCR western blot and luciferase reporter assays; There was an inverse correlation between the levels of miR-92a and PTEN in CRC tissues; The overexpression of miR-92a in CRC cells decreased PTEN expression at the translational level and decreased PTEN-driven luciferase-reporter activity; Our results demonstrated that miR-92a induced EMT and regulated cell growth migration and invasion in the SW480 cells at least partially via suppression of PTEN expression |
| 19 | hsa-miR-92b-3p | PTEN | -0.24 | 0.11056 | -0.14 | 0.7904 | MirTarget; miRNATAP | -0.24 | 0.00079 | 24099768; 26878388; 24137349; 23546593 | MiR 92b regulates the cell growth cisplatin chemosensitivity of A549 non small cell lung cancer cell line and target PTEN; Furthermore we found miR-92b could directly target PTEN a unique tumor suppressor gene which was downregulated in lung cancer tissues compared to the matched adjacent normal tissues;We revealed that patients exhibiting an upregulation of hsa-miR-92b and patients with deletions of PTEN did not tend to overlap and hsa-miR-92b and PTEN coordinately regulated the pathway of 'cell cycle' and so on;MicroRNA miR-92 is overexpressed in a number of tumors and has been proven to negatively regulate a number of tumor suppressor genes including phosphatase and tensin homologue PTEN; PTEN protein expression was decreased in the SiHa cells that were transfected with the miR-92 mimic; The data indicated that miR-92 may increase the migration and invasion of SiHa cells partially through the downregulation of PTEN protein expression;Expression and significance of PTEN and miR 92 in hepatocellular carcinoma; Immunohistochemistry streptavidin-peroxidase SP and quantitative reverse transcriptase-polymerase chain reaction qRT‑PCR were used to detect the expression of PTEN and miR-92 in 15 cases of HCC and the corresponding paracancerous tissues; The correlation between PTEN and miR-92 was analyzed; Additionally the mRNA levels of PTEN and miR-92 showed a significantly negative correlation with each other r=-0.858 P<0.05; In conclusion PTEN and miR-92 have different roles in the development of HCC; The combined detection of PTEN and miR-92 may provide critical clinical evidence for the early diagnosis and prognosis of HCC |
| Num | GO | Overlap | Size | P Value | Adj. P Value |
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| Num | GO | Overlap | Size | P Value | Adj. P Value |
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| Num | GO | Overlap | Size | P Value | Adj. P Value |
|---|
Over-represented Pathway
| Num | Pathway | Pathview | Overlap | Size | P Value | Adj. P Value |
|---|---|---|---|---|---|---|
| 1 | hsa04530_Tight_junction | 2 | 133 | 4.389e-05 | 0.007901 |
lncRNA-mediated sponge
| Num | lncRNA | miRNAs | miRNAs count | Gene | Sponge regulatory network | lncRNA log2FC | lncRNA pvalue | Gene log2FC | Gene pvalue | lncRNA-gene Pearson correlation |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | TUG1 | hsa-let-7b-3p;hsa-let-7f-1-3p;hsa-miR-125a-3p;hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-188-5p;hsa-miR-198;hsa-miR-300;hsa-miR-30d-3p;hsa-miR-494-3p;hsa-miR-548c-3p;hsa-miR-548c-5p;hsa-miR-622;hsa-miR-92a-3p;hsa-miR-92b-3p | 16 | PTEN | Sponge network | -0.082 | 0.8978 | -0.138 | 0.7904 | 0.753 |
| 2 | RP11-819C21.1 | hsa-miR-125a-3p;hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-188-5p;hsa-miR-198;hsa-miR-30d-3p;hsa-miR-30d-5p;hsa-miR-548c-3p;hsa-miR-548c-5p;hsa-miR-622 | 11 | PTEN | Sponge network | -0.347 | 0.44227 | -0.138 | 0.7904 | 0.723 |
| 3 | AC009948.5 | hsa-miR-125a-3p;hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-188-5p;hsa-miR-198;hsa-miR-30d-3p;hsa-miR-30d-5p;hsa-miR-486-5p;hsa-miR-494-3p;hsa-miR-548c-3p;hsa-miR-622 | 12 | PTEN | Sponge network | -0.28 | 0.49856 | -0.138 | 0.7904 | 0.625 |
| 4 | LINC00641 | hsa-let-7b-3p;hsa-let-7f-1-3p;hsa-miR-125a-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-188-5p;hsa-miR-198;hsa-miR-300;hsa-miR-30d-3p;hsa-miR-486-5p;hsa-miR-494-3p;hsa-miR-548c-3p;hsa-miR-548c-5p | 13 | PTEN | Sponge network | -0.08 | 0.86976 | -0.138 | 0.7904 | 0.578 |
| 5 | CTC-428H11.2 | hsa-miR-125a-3p;hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-30d-5p;hsa-miR-494-3p;hsa-miR-548c-3p;hsa-miR-622;hsa-miR-92a-3p;hsa-miR-92b-3p | 10 | PTEN | Sponge network | -0.099 | 0.84364 | -0.138 | 0.7904 | 0.551 |
| 6 | RP11-890B15.3 | hsa-miR-125a-3p;hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-188-5p;hsa-miR-198;hsa-miR-30d-3p;hsa-miR-494-3p;hsa-miR-548c-3p;hsa-miR-622 | 10 | PTEN | Sponge network | -0.392 | 0.44544 | -0.138 | 0.7904 | 0.525 |
| 7 | AF131217.1 | hsa-miR-125a-3p;hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-188-5p;hsa-miR-198;hsa-miR-30d-3p;hsa-miR-30d-5p;hsa-miR-486-5p;hsa-miR-548c-3p | 10 | PTEN | Sponge network | -1.152 | 0.01238 | -0.138 | 0.7904 | 0.487 |
| 8 | RP11-88I18.2 | hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-188-5p;hsa-miR-30d-3p;hsa-miR-30d-5p;hsa-miR-486-5p;hsa-miR-494-3p;hsa-miR-548c-3p;hsa-miR-622;hsa-miR-92a-3p | 11 | PTEN | Sponge network | -0.08 | 0.88027 | -0.138 | 0.7904 | 0.478 |
| 9 | NNT-AS1 | hsa-miR-125a-3p;hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-188-5p;hsa-miR-198;hsa-miR-30d-5p;hsa-miR-486-5p;hsa-miR-494-3p;hsa-miR-548c-3p;hsa-miR-622 | 11 | PTEN | Sponge network | -0.272 | 0.46859 | -0.138 | 0.7904 | 0.447 |
| 10 | RP11-138A9.1 | hsa-miR-125a-3p;hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-198;hsa-miR-30d-3p;hsa-miR-30d-5p;hsa-miR-494-3p;hsa-miR-548c-3p;hsa-miR-622 | 10 | PTEN | Sponge network | -0.222 | 0.69145 | -0.138 | 0.7904 | 0.443 |
| 11 | TPT1-AS1 | hsa-miR-125a-3p;hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-188-5p;hsa-miR-198;hsa-miR-30d-3p;hsa-miR-30d-5p;hsa-miR-486-5p;hsa-miR-494-3p;hsa-miR-622;hsa-miR-92a-3p | 12 | PTEN | Sponge network | -0.231 | 0.6242 | -0.138 | 0.7904 | 0.435 |
| 12 | FENDRR | hsa-miR-125a-3p;hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-188-5p;hsa-miR-30d-3p;hsa-miR-30d-5p;hsa-miR-486-5p;hsa-miR-494-3p;hsa-miR-548c-3p;hsa-miR-622 | 11 | PTEN | Sponge network | -0.607 | 0.19655 | -0.138 | 0.7904 | 0.391 |
| 13 | ADAMTS9-AS2 | hsa-miR-125a-3p;hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-188-5p;hsa-miR-30d-3p;hsa-miR-30d-5p;hsa-miR-494-3p;hsa-miR-548c-3p;hsa-miR-622;hsa-miR-92a-3p | 11 | PTEN | Sponge network | -0.731 | 0.1326 | -0.138 | 0.7904 | 0.357 |
| 14 | RP11-166D19.1 | hsa-miR-125a-3p;hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-188-5p;hsa-miR-30d-3p;hsa-miR-494-3p;hsa-miR-548c-3p;hsa-miR-622;hsa-miR-92a-3p | 10 | PTEN | Sponge network | -0.287 | 0.4855 | -0.138 | 0.7904 | 0.343 |
| 15 | MIR143HG | hsa-miR-125a-3p;hsa-miR-130b-3p;hsa-miR-141-3p;hsa-miR-150-3p;hsa-miR-188-5p;hsa-miR-30d-3p;hsa-miR-30d-5p;hsa-miR-486-5p;hsa-miR-548c-3p;hsa-miR-622;hsa-miR-92a-3p | 11 | PTEN | Sponge network | -0.809 | 0.12694 | -0.138 | 0.7904 | 0.296 |