colon: Gene expression data from colon-cancer patients

In biglasso: Extending Lasso Model Fitting to Big Data

Gene expression data from colon-cancer patients

Description

The data file contains gene expression data of 62 samples (40 tumor samples, 22 normal samples) from colon-cancer patients analyzed with an Affymetrix oligonucleotide Hum6000 array.

Usage

data(colon)

Format

A list of 2 variables:

X

A 62-by-2000 matrix that records the gene expression data. Used as design matrix.

y

A binary vector of length 62 recording the sample status: 1 = tumor; 0 = normal. Used as response vector.

Source

The raw data can be found on Bioconductor: https://bioconductor.org/packages/release/data/experiment/html/colonCA.html.

References

Alon U, Barkai N, Notterman DA, Gish K, Ybarra S, Mack D, and Levine AJ (1999). Broad patterns of gene expression revealed by clustering analysis of tumor and normal colon tissues probed by oligonucleotide arrays. Proc. Natl. Acad. Sci. 96: 6745–6750 \Sexpr[results=rd]{tools:::Rd_expr_doi("https://doi.org/10.1073/pnas.96.12.6745")}

Examples

data(colon)
X <- colon$X
y <- colon$y
str(X)
dim(X)
X.bm <- as.big.matrix(X, backingfile = "") # convert to big.matrix object
str(X.bm)
dim(X.bm)

biglasso documentation built on Aug. 25, 2026, 5:08 p.m.