CellCycle: Cell cycle data

In secure: Sequential Co-Sparse Factor Regression

Description

A list of two matrices used in Lee (2002).

Usage

data(CellCycle)

Format

A list with two components:

X

Chromatin immunoprecipitation data, a matrix of 1790 rows and 113 columns.

Y

Eukariotic cell cycle data, a matrix of 1790 rows and 18 columns.

Details

Matrix X, the chromatin immunoprecipitation (ChIP) data contain complete binding information of a subset of 1790 genes for a total of 113 transcription factors.

Matrix Y, the Eukariotic cell cycle data were generated using alpha factor arrest method, consisting of RNA levels measured every 7 minutes for 119 minutes with a total of 18 time points covering two cell cycle of 1790 genes.

References

Lee, T. I., Rinaldi, N. J., Robert, F., Odom, D. T., Bar-Joseph, Z., Gerber, G. K., Hannett, N. M., Harbison, C. T., Thompson, C. M., Simon, I. et al. (2002) Transcriptional regulatory networks in saccharomyces cerevisiae. Science, 298, 799-804.

Examples

# data(CellCycle)
# X <- CellCycle$X;Y <- CellCycle$Y
# n <- nrow(Y); p <- ncol(X); q <-  ncol(Y)
# control <- secure.control(spU=160/p,spV=1)
# fit.cycle <- secure.path(Y, X, nrank = 10, nlambda = 100,
#                   control = control)

secure documentation built on Feb. 26, 2021, 5:08 p.m.