DCGL (version 1.02)

dataB: Simulated dataset based on deliberately-perturbed gene regulation networks (Yu, et al., 2010)

Description

Simulated gene expression dataset, each containing 1000 rows and 20 columns (Yu, et al., 2010).

Usage

data(dataB)

format

A data frame with 1000 observations 20 variables.

• dataB

{ A data frame with 1000 observations 20 columns. The expression values. }

Details

We simulated three dataset pairs (denoted dataA, dataB, dataC) using SynTReN based on a predefined E.coli gene regulatory network of a total of 1300 genes (Van den Bulcke, et al., 2006). Specifically, we selected a sub-network of 1000 genes as the original network,and exerted artificial perturbation on 10 percents of its links as if it was from a different condition. The three groups had different perturbation types.For dataB, we used regulation-alteration (alter a link between a pair of genes between repress and active). In each data matrix, the first ten columns correspond to one condition and the second ten correspond to the other.

References

Yu H., Liu B-H., et al., Link-specific Quantitative Methods to Identify Differentially Coexpressed Genes and Gene Pairs. Submitted. 2010 Van den Bulcke, T., et al. (2006) SynTReN: a generator of synthetic gene expression data for design and analysis of structure learning algorithms, BMC Bioinformatics, 7, 43.

Examples

data(dataB)
dataB[,1:10] # exprssion data for condition 1
dataB[,11:20] # exprssion data for condition 2
row.names(dataB) # gene identifier