Dataset 

Group1Group2
DatasetLung_adenocarcinomaLung_adenocarcinoma
miRNA_count46491
RNA_count58510
Sample TypeSolid_tissue_normalPrimary_solid_tumor
Clinical Condition

Differential Expression analysis

Differentially expressed miRNAs

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id baseMean baseMeanA baseMeanB foldChange log2FoldChange pval padj

Differentially expressed other sncRNAs

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id baseMean baseMeanA baseMeanB foldChange log2FoldChange pval padj

Differentially expressed genes

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id baseMean baseMeanA baseMeanB foldChange log2FoldChange pval padj

miRNA-gene interactions

the max_cor/max(|R|)
the number of prediction tools/SUM

Validated miRNA targets

*The table below only shows the first 500 records, download the file to see all record*

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gene_symbol mirbase_mat_id pearson
_corvalue
pearson
_pvalue
spearman
_corvalue
spearman
_pvalue
kendall
_corvalue
kendall
_pvalue
max_cor

Predicted miRNA targets

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gene_symbol mirbase_mat_id SUM pearson
_corvalue
pearson
_pvalue
spearman
_corvalue
spearman
_pvalue
kendall
_corvalue
kendall
_pvalue
max_cor

miRNA targets without any evidences

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gene_symbol mirbase_mat_id pearson
_corvalue
pearson
_pvalue
spearman
_corvalue
spearman
_pvalue
kendall
_corvalue
kendall
_pvalue
max_cor

Visualization of miRNA-gene interactions

To illustrate the many-to-many relationships between miRNA-gene interactions, the Cytoscape Web tool is embedded for interactive network visualization.


miRNA regulated pathways

Gene Oncology Analysis

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Pathway Analysis

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Gene Oncology Analysis

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Pathway Analysis

Download files for Cytoscape: interaction and node attribute
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The dataset table shows the results of the cancer type you chosen in TCGA , and the number of normal samples and primary tumor tissues are presented.

There are miRNAs, other sncRNAs and genes differentially expression between normal and tumor tissues, presenting by heatmaps and summary tables.

The number in the parenthesis() indicates the amount of miRNA, other sncRNAs, and genes.

The maximum absolute correlation coefficient, the 'max_cor'/'max(|R|)' is the maximum of three correlation: the Pearson, Spearman, and Kendall correlations for each miRNA-gene pair.

'The number of prediction tools' which indicate the ‘SUM’ in the table, can be chosen here. This function only works in the 'Predicted miRNA targets' section.

The correlations of each miRNA-gene pair between the differentially expressed miRNAs and genes were calculated and divided into three groups, namely, 'Validated', 'Predicated', and 'Without any evidence'.

The 'Validated' interactions are based on the information from miRTarBase database Release 6.1, which contains > 366,000 interactions.

The predicted miRNA targets were identified by 12 miRNA target prediction tools. Only the targets that were identified by at least 6 tools were retained to improve the reliability of the prediction results.

To illustrate the many-to-many relationships between miRNA-gene interactions, the Cytoscape Web tool is embedded for interactive network visualization.

The genes that interacted with miRNAs are further functionally analysed to address the cancer miRNA-related pathways.

'Validated' is the functional analysis from the 'Validated miRNA targets', showing above .

'Validated+Predicted' is the combination analysis of 'Validated miRNA targets' and 'Predicted miRNA targets'.

A, B: The topology of significantly altered GO categories accounted by topGO and GeneAnswers packages of Bioconductor, respectively.

C, D: The most significantly altered GO categories and genes.

E: A table of all significantly altered GO categories.

A, B: The topology of significantly altered GO categories accounted by topGO and GeneAnswers packages of Bioconductor, respectively.

C, D: The most significantly altered GO categories and genes.

E: A table of all significantly altered GO categories.

There are 8 collections of gene sets from public databases including
KEGG, REACTOME, MSigDB, PID, and Biocarta.

The following table shows the information of these collections.

There are 8 collections of gene sets from public databases including
KEGG, REACTOME, MSigDB, PID, and Biocarta.

The following table shows the information of these collections.