Gene lists for hi or low abundance in cerebellum according to Novartis GNF symatlas

Description

Data frames with gene lists for hi or low abundance in cerebellum according to Novartis GNF symatlas

Usage

data(gnfCerebHi)
data(gnfCerebLow)

Details

The symatlas.gnf.org database was searched using the gcrma version of human gene atlas for genes having expression in cerebellum at least 3 times (or at most 1/3 times) median expression over all organs surveyed. The resulting gene lists were intersected with genes present on GE codelink (version used in MAQCsubset) and hgu95a.

Value

data.frame instances with columns providing gene name, affy probe set identifier, codelink probe identifier, illuminaHumanv1 identifier.

Author(s)

Vince Carey <stvjc@channing.harvard.edu>

Examples

data(gnfCerebHi)
gnfCerebHi[1:3,]

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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> library(MAQCsubset)
Loading required package: affy
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: lumi
Setting options('download.file.method.GEOquery'='auto')
Setting options('GEOquery.inmemory.gpl'=FALSE)

Attaching package: 'lumi'

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

    MAplot, plotDensity

> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/MAQCsubset/gnfCerebHi.Rd_%03d_medium.png", width=480, height=480)
> ### Name: gnfCerebHi
> ### Title: Gene lists for hi or low abundance in cerebellum according to
> ###   Novartis GNF symatlas
> ### Aliases: gnfCerebHi gnfCerebLow
> ### Keywords: models
> 
> ### ** Examples
> 
> data(gnfCerebHi)
> gnfCerebHi[1:3,]
      sym                          geneName    u133p2   hwgcod         illv1
1    ABAT  4-aminobutyrate aminotransferase 206527_at GE612525 GI_38679949-S
2 ABHD14A abhydrolase domain containing 14A 210006_at  GE56227 GI_34147328-S
3   ABHD6   abhydrolase domain containing 6 221552_at  GE52978 GI_34147685-S
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>