Map between Common Gene Symbol Identifiers and Manufacturer Identifiers

Description

illuminaMousev2ALIAS is an R object that provides mappings between common gene symbol identifiers and manufacturer identifiers.

Details

Each gene symbol is mapped to a named vector of manufacturer identifiers. The name represents the gene symbol and the vector contains all manufacturer identifiers that are found for that symbol. An NA is reported for any gene symbol that cannot be mapped to any manufacturer identifiers.

This mapping includes ALL gene symbols including those which are already listed in the SYMBOL map. The SYMBOL map is meant to only list official gene symbols, while the ALIAS maps are meant to store all used symbols.

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

    # Convert the object to a list
    xx <- as.list(illuminaMousev2ALIAS2PROBE)
    if(length(xx) > 0){
        # Get the probe identifiers for the first two aliases
        xx[1:2]
        # 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(illuminaMousev2.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.Mm.eg.db


> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/illuminaMousev2.db/illuminaMousev2ALIAS2PROBE.Rd_%03d_medium.png", width=480, height=480)
> ### Name: illuminaMousev2ALIAS2PROBE
> ### Title: Map between Common Gene Symbol Identifiers and Manufacturer
> ###   Identifiers
> ### Aliases: illuminaMousev2ALIAS2PROBE
> ### Keywords: datasets
> 
> ### ** Examples
> 
>     # Convert the object to a list
>     xx <- as.list(illuminaMousev2ALIAS2PROBE)
>     if(length(xx) > 0){
+         # Get the probe identifiers for the first two aliases
+         xx[1:2]
+         # Get the first one
+         xx[[1]]
+     }
[1] "ILMN_2688905"
> 
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>