apoai {lemma}R Documentation

The APO-AI data set (Callow et al., 2000)

Description

The ApoA1 experiment (Callow et al., 2000) used gene targeting in embryonic stem cells to produce mice lacking apolipprotein A-1, a gene known to play a critical role in high density lipoprotein (HDL) cholesterol levels. Originally, 5,600 expressed sequence tags (EST) were selected. For this data set, we used the data and normalization method provided with the LIMMA R package (Smyth, 2005), which consists of 5,548 ESTs, from 8 control (wild type "black six") mice and 8 "knockout" (lacking ApoA1) mice. Common reference RNA was obtained by pooling RNA from the control mice, and was used to perform expression profiling for all 16 mice. The response of interest is the log2 fluorescence ratio (with respect to the common reference).

Usage

apoai

Format

A data frame containing 5,548 rows and 18 columns. The first column contains the gene IDs, the second column contains the gene names. Columns 3-11 contain the reponses for the 8 mice in the control group, and columns 12-18 contain the reponses for the 8 mice in the treatment group.

References

Callow, M. J., Dudoit, S., Gong, E. L., Speed, T. P. and Rubin, E. M. (2000). Microarray expression profiling identifies genes with altered expression in HDL-deficient mice. Genome Res, 10 2022-9.


[Package lemma version 1.2-1 Index]