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.
Note that spYCCES
is an ExpressionSet
instance with the same data and
slightly different phenodata annotation.
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.
data(yeastCC) yeastCC varLabels(yeastCC) pData(yeastCC) description(yeastCC) abstract(yeastCC) featureNames(yeastCC)[1:10] dim(exprs(yeastCC))