| yeastCC {yeastCC} | R Documentation |
This data package contains an exprSet instance for the
yeast cell cycle microarray experiment. The dataset contains gene expression
measures (log-ratios, with Cy3-labeled common reference) for
6,178 yeast genes in 77 conditions.
data(yeastCC)
There are four main timecourses:
alpha (alpha factor arrest), cdc15, cdc28, and elu (elutriation), corresponding to different
synchronization methods. For details on experimental procedures and
analysis, refer to Spellman et al. (1998) (in ../doc)
and the Yeast Cell Cycle
Analysis Project website (http://genome-www.stanford.edu/cellcycle/).
The
exprSet instance yeastCC was derived from the
file "combined.txt" on the website. The ORF names for the 800 cell
cycle regulated genes are stored in orf800.
The raw data (images, TIFF) and processed data "combine.txt" used to create the
exprSet instance yeastCC are available from the
Yeast Cell Cycle
Analysis Project website
(http://genome-www.stanford.edu/cellcycle/).
Gene annotation
information is available from the Saccharomyces Genome Database (SGD,
http://genome-www.stanford.edu/Saccharomyces/gene_list.shtml).
The script "createYeastCC.R" for generating the yeastCC package is available in ../doc.
Spellman et al. (1998). Comprehensive Identification of Cell Cycle-regulated Genes of the Yeast Saccharomyces cerevisiae by Microarray Hybridization. Molecular Biology of the Cell, 9: 3273-3297 (../doc).
data(yeastCC) yeastCC varLabels(yeastCC) pData(yeastCC) description(yeastCC) abstract(yeastCC) geneNames(yeastCC)[1:10] x <- exprs(yeastCC) dim(x)