Description Usage Arguments Value Examples
This function uses the targetscan database annotations to get the microRNA gene and protien tragets. For microRNA-gene targets it is a straight forward subsetting the database and converting to ta tidy data.frame with the appropriate IDs. For microRNA-protein targets, it first obtain the gene targets as explained and then change transform the IDs to the corresponding protein/antibody IDs provided by the manufacturers of the used assays.
1 | get_targets(mirna, feature_type = "gene")
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mirna |
A charachter vector of the names of microRNAs of interes |
feature_type |
A character string to choose the desired type of annotations. Takes one of 'gene' or 'protein'. |
A tidy data.frame of microRNA in one column 'mirna_base' and targets column 'feature'. When used with the 'protein' another column is added to distinguish the feature_types genes or proteins.
1 2 3 | mirna_base <- c("hsa-let-7a", "hsa-let-7b", "hsa-let-7c")
gene <- get_targets(mirna_base, 'gene')
ptn <- get_targets(mirna_base, 'protein')
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