illuminaHumanv4GENENAME is an R object that maps manufacturer
identifiers to the corresponding gene name.
Details
Each manufacturer identifier maps to a named vector containing the gene
name. The vector name corresponds to the manufacturer identifier. If the gene
name is unknown, the vector will contain an NA.
Gene names currently include both the official (validated by a
nomenclature committee) and preferred names (interim selected for
display) for genes. Efforts are being made to differentiate the two
by adding a name to the vector.
Mappings were based on data provided by: Entrez Gene
ftp://ftp.ncbi.nlm.nih.gov/gene/DATA
With a date stamp from the source of: 2015-Mar17
Examples
x <- illuminaHumanv4GENENAME
# Get the probe identifiers that are mapped to a gene name
mapped_probes <- mappedkeys(x)
# Convert to a list
xx <- as.list(x[mapped_probes])
if(length(xx) > 0) {
# Get the GENENAME for the first five probes
xx[1:5]
# Get the first one
xx[[1]]
}
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)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(illuminaHumanv4.db)
Loading required package: AnnotationDbi
Loading required package: stats4
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: Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: IRanges
Loading required package: S4Vectors
Attaching package: 'S4Vectors'
The following objects are masked from 'package:base':
colMeans, colSums, expand.grid, rowMeans, rowSums
Loading required package: org.Hs.eg.db
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/illuminaHumanv4.db/illuminaHumanv4GENENAME.Rd_%03d_medium.png", width=480, height=480)
> ### Name: illuminaHumanv4GENENAME
> ### Title: Map between Manufacturer IDs and Genes
> ### Aliases: illuminaHumanv4GENENAME
> ### Keywords: datasets
>
> ### ** Examples
>
> x <- illuminaHumanv4GENENAME
> # Get the probe identifiers that are mapped to a gene name
> mapped_probes <- mappedkeys(x)
> # Convert to a list
> xx <- as.list(x[mapped_probes])
> if(length(xx) > 0) {
+ # Get the GENENAME for the first five probes
+ xx[1:5]
+ # Get the first one
+ xx[[1]]
+ }
[1] "eukaryotic translation elongation factor 1 alpha 1"
>
>
>
>
>
> dev.off()
null device
1
>