giaever {GraphAT}R Documentation

Yeast Gene-Knockout Fitness Data

Description

This data set contains fitness deficiency scores from gene knockout experiments involving yeast grown under a variety of altered environments (e.g. acid, heat, sorbitol, etc.)

Usage

data(giaever)

Format

A matrix whose rows are the 5922 genes knocked out and whose columns are the 32 experimental conditions.

Source

http://gobi.lbl.gov/YeastFitnessData

References

Giaever, G. et al. 2002 ``Functional profiling of the Saccharomyces cerevisiae genome.'' Nature 418, 387–391.

Examples

data(giaever)

## Find the 3000 most variable genes, according to sd/mean:

varMeas<-function(vec,na.rm=TRUE){
sd(vec,na.rm)/mean(vec,na.rm)}
variability<-apply(giaever,1,varMeas)

rks<-rank(variability)

giaever3000<-giaever[rks>length(rownames(giaever))-3000,]

[Package GraphAT version 1.0.0 Index]