Map between Manufacturer Identifiers and UniGene cluster identifiers

Description

illuminaHumanv2BeadIDUNIGENE is an R object that provides mappings between manufacturer identifiers and UniGene identifiers.

Details

Each manufacturer identifier is mapped to a UniGene identifier. An NA is reported if the manufacturer identifier cannot be mapped to UniGene at this time.

A UniGene identifier represents a cluster of sequences of a gene. Using UniGene identifiers one can query the UniGene database for information about the sequences or the Entrez Gene database for information about the genes.

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: 2010-Sep7

References

http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene

Examples

        x <- illuminaHumanv2BeadIDUNIGENE
        # Get the probe identifiers that are mapped to an UNIGENE ID
        mapped_probes <- mappedkeys(x)
        # Convert to a list
        xx <- as.list(x[mapped_probes])
        if(length(xx) > 0) {
          # Get the UNIGENE 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(illuminaHumanv2BeadID.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


illuminaHumanv2BeadID.db is an older package, and the package
  contributor no longer supports it. Please be advised that this
  package is now out of date and should not occur in future
  bioconductor releases.  For a more current package containing the
  same kind of data, please use the appropriate illumina_XXX_.db
  packages instead of the illumina_XXX_BeadID.db packages and make use
  of the new illumina_XXX_ARRAYADDRESS mapping to convert between
  BeadIDs and Illumina IDs.

*_XXX_ here refers to the species and version for this platform

> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/illuminaHumanv2BeadID.db/illuminaHumanv2BeadIDUNIGENE.Rd_%03d_medium.png", width=480, height=480)
> ### Name: illuminaHumanv2BeadIDUNIGENE
> ### Title: Map between Manufacturer Identifiers and UniGene cluster
> ###   identifiers
> ### Aliases: illuminaHumanv2BeadIDUNIGENE
> ### Keywords: datasets
> 
> ### ** Examples
> 
>         x <- illuminaHumanv2BeadIDUNIGENE
>         # Get the probe identifiers that are mapped to an UNIGENE ID
>         mapped_probes <- mappedkeys(x)
>         # Convert to a list
>         xx <- as.list(x[mapped_probes])
>         if(length(xx) > 0) {
+           # Get the UNIGENE for the first five probes
+           xx[1:5]
+           # Get the first one
+           xx[[1]]
+         }
[1] "Hs.335754"
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>