exprSet instance Iyer517, time series on transcriptional response of fibroblasts to serum

Description

an expression set for timed measurements of transcriptional response of fibroblasts to serum in presence or absence of cycloheximide

Slots

exprs:

Object of class matrix, value: 517 x 19 expression levels (normed to 1 at time 0)

se.exprs:

Object of class matrix, value: absent

description:

Object of class MIAME, value: string

annotation:

Object of class character, value: ”

notes:

Object of class character, value: ”

phenoData:

Object of class phenoData, value: data frame with info on timing

class:

Object of class character, value: 'exprSet'

References

Iyer et al 1999 Science v283 83-87

Examples

data(Iyer517)
show(Iyer517)
plot(apply(exprs(Iyer517)[1:100,1:13],2,mean),main="Cluster A",
xlab="index in time seq", ylab="ratio to time 0", log="y")

Results

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> library(Iyer517)
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")'.

> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/Iyer517/Iyer517.Rd_%03d_medium.png", width=480, height=480)
> ### Name: Iyer517
> ### Title: exprSet instance Iyer517, time series on transcriptional
> ###   response of fibroblasts to serum
> ### Aliases: Iyer517
> ### Keywords: methods
> 
> ### ** Examples
> 
> data(Iyer517)
> show(Iyer517)
ExpressionSet (storageMode: lockedEnvironment)
assayData: 517 features, 19 samples 
  element names: exprs 
protocolData: none
phenoData
  sampleNames: E0HR E15MIN ... EUNSYNC (19 total)
  varLabels: time.hrs cycloheximide
  varMetadata: labelDescription
featureData: none
experimentData: use 'experimentData(object)'
  pubMedIds: 9872747 
Annotation:  
> plot(apply(exprs(Iyer517)[1:100,1:13],2,mean),main="Cluster A",
+ xlab="index in time seq", ylab="ratio to time 0", log="y")
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>