estrogen: Microarray Data from an Experiment on Breast Cancer Cells

In factDesign: Factorial designed microarray experiment analysis

Description

Gene expression levels for 500 genes from a 2x2 factorial experiment on MCF7 breast cancer cells using Affymetrix HGU95av2 arrays.

Usage

data(estrogen)

Format

An ExpressionSet object with 500 genes, 8 samples, and 2 variables.

Details

The factors in this experiment were estrogen (ES: P or A) and length of exposure (TIME: 10 or 48 hours). Gene expression values were estimated using rma after quantile normalization (see the 'affy' package). Expression estimates are reported log base 2, as suggested by the rma method.

Source

Scholtens et al. Analyzing Factorial Designed Microarray Experiments. Journal of Multivariate Analysis. 2004;90(1):19-43.

Examples

data(estrogen)
pData(estrogen)
exprs(estrogen)[1,]

Example output

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, sd, var, xtabs

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

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colMeans, colSums, colnames,
    dirname, 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,
    rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply,
    union, unique, unsplit, which, which.max, which.min

Welcome to Bioconductor

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

        ES TIME
et1.CEL  A  10h
et2.CEL  A  10h
Et1.CEL  P  10h
Et2.CEL  P  10h
eT1.CEL  A  48h
eT2.CEL  A  48h
ET1.CEL  P  48h
ET2.CEL  P  48h
 et1.CEL  et2.CEL  Et1.CEL  Et2.CEL  eT1.CEL  eT2.CEL  ET1.CEL  ET2.CEL 
4.970288 4.652992 4.450018 4.718027 4.760855 4.883518 4.697013 4.568902 

factDesign documentation built on Nov. 8, 2020, 8:32 p.m.