fcros (version 1.6.1)

cghInfo: Example of aCGH "info file" for the fcros package.

Description

This dataset is part of the Agilent 244K design array probes description file which is used in the publicatin of Sircoulomb et al. 2010, BMC Cancer, 10:539. For our illustration, we used only 3 chromosomes (7, 8 and 9) data. The complete data are available in the file "GPL9158-3352.txt", see the Gene Expression Omnibus website and accession number GSE17907.

Usage

data(cghInfo)

Format

A data frame with 33,3613 rows for 7 columns with information on probes.

Index:

a numeric used for the probe

ProbeName:

a text for the unique probe ID

GeneSymbol:

a text with the gene symbol associated with the probe

Chromosome:

a text with the chromosome index associated with the probe

Start:

a start position value for the sequence associated with the probe

End:

an end position value for the sequence associated with the probe

Cytoband:

a text for the cytoband associated with the probe

Details

This is a part of information obtained from the Agilent 244K design array probes description file.

References

F Sircoulomb, I Bekhouche, P Finetti, J Adelaide, AB Hamida, J Bonansea, S Raynaud, C Innocenti, E Charafe-Jauffret, C Tarpin, FB Ayed, P Viens, J Jacquemier, F Bertucci, D Birnbaum and M Chaffanet; Genome profiling of ERBB2-amplifief breast cancers. BMC Cancer, 2010, 10:539

Examples

# NOT RUN {
   data(cghInfo)

   summary(cghInfo)
# }