microRNA target sites

Description

A data frame of human microRNA target sites retrieved from MiRBase. This is a subset of the hsTargets data frame in the microRNA package. See the rtracklayer vignette for more details.

Usage

data(targets)

Format

A data frame with 2981 observations on the following 6 variables.

name

The miRBase ID of the microRNA.

target

The Ensembl ID of the targeted transcript.

chrom

The name of the chromosome for target site.

start

Target start position.

end

Target stop position.

strand

The strand of the target site, "+", or "-".

Source

The microRNA package, dataset hsTargets. Originally MiRBase (http://microrna.sanger.ac.uk/).

Examples

data(targets)
targetTrack <- with(targets, 
    GenomicData(IRanges::IRanges(start, end), 
                strand = strand, chrom = chrom))

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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Type 'demo()' for some demos, 'help()' for on-line help, or
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> library(rtracklayer)
Loading required package: GenomicRanges
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
    get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
    match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
    rbind, rownames, sapply, setdiff, sort, table, tapply, union,
    unique, unsplit

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

The following objects are masked from 'package:base':

    colMeans, colSums, expand.grid, rowMeans, rowSums

Loading required package: IRanges
Loading required package: GenomeInfoDb
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/rtracklayer/targets.Rd_%03d_medium.png", width=480, height=480)
> ### Name: targets
> ### Title: microRNA target sites
> ### Aliases: targets
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(targets)
> targetTrack <- with(targets, 
+     GenomicData(IRanges::IRanges(start, end), 
+                 strand = strand, chrom = chrom))
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>