ceRNA.app {CeRNASeek}

identify the miRNAs that co-regulate the gene pairs of interest.

Description

The ceRNA function is used to identify the miRNAs that co-regulate the gene pairs of interest. The users can input the genes of interest. Otherwise, all the paired genes were calculated the number of co-regulating miRNAs.

Usage

ceRNA.app(miRtar, targetce = NULL)

Arguments

miRtar

A data frame representing the relationship between miRNA and target. The data frame contains the name of the miRNA and target regulatory relationship.

targetce

a character string (vector) specifying candidate target name to analyse (default (targetce = NULL)).

Details

Note:All the arguments without default value must be assigned.

Value

A list of identified miRNAs that co-regulate the gene pairs containing following components:

• ceRNA identify the miRNAs that co-regulate the gene pairs of interest,List all possible ceRNA interactions,a 4 columns dataframe as following:

  • targetce represented target names,respectively.

  • anotherce names of modulators that another possible target(modulators) constitutes a ceRNA interaction relation.

  • miRNAs names of miRNA shared by two targets.

  • miRNAs_num number of miRNAs shared by two targets.

• miR_l Number of miRNAs interacting with each target in the input file.

Examples

##Here we take the regulatory relationship between six genes and 71 miRNAs.

ceRNA.app(dataset[["miRtar"]],targetce=NULL)