Intensity data for 46 Affymetrix slides with tissue samples of breast tumors

Description

Intensity data for 46 Affymetrix hu6800 slides with tissue samples of breast tumors. See vignette Nevins.pdf in the /scripts directory for details of the processing.

Usage

data(Nevins)

Format

Nevins is an ExpressionSet containing the data from 46 Affymetrix chips.

Source

http://data.cgt.duke.edu/west.php

References

Predicting the clinical status of human breast cancer by using gene expression profiles, West M, Blanchette C, Dressman H, Huang E, Ishida S, Spang R, Zuzan H, Olson JA Jr, Marks JR, and Nevins JR. Proc Natl Acad Sci U S A 98(20):11462-7 (2001)

Examples

data(Nevins)
Nevins

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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> library(GeneMeta)
Loading required package: Biobase
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

Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: genefilter
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/GeneMeta/Nevins.Rd_%03d_medium.png", width=480, height=480)
> ### Name: Nevins
> ### Title: Intensity data for 46 Affymetrix slides with tissue samples of
> ###   breast tumors
> ### Aliases: Nevins
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(Nevins)
> Nevins
ExpressionSet (storageMode: lockedEnvironment)
assayData: 7129 features, 46 samples 
  element names: exprs, se.exprs 
protocolData: none
phenoData
  sampleNames: Nevins4 Nevins5 ... Marks223 (46 total)
  varLabels: ER.status LN.status ... ER.Status.blot (7 total)
  varMetadata: labelDescription
featureData: none
experimentData: use 'experimentData(object)'
Annotation: hu6800 
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>