mouse: Mouse Mesenchymal Cells

In clValid: Validation of Clustering Results

Description

Data from an Affymetrix microarray experiment (moe430a) comparing comparing gene expression of mesenchymal cells from two distinct lineages, neural crest and mesoderm derived. The dataset consists of 147 genes and ESTs which were determined to be significantly differentially expressed between the two cell lineages, with at least a 1.5 fold increase or decrease in expression. There are three samples for each of the neural crest and mesoderm derived cells.

Usage

data(mouse)

Format

A data frame with 147 observations on the following 8 variables.

ID

The Affymetric GeneChip ID, from the moe430a chip

M1

Mesoderm derived cell sample

M2

Mesoderm derived cell sample

M3

Mesoderm derived cell sample

NC1

Nueral crest derived cell sample

NC2

Nueral crest derived cell sample

NC3

Nueral crest derived cell sample

FC

The functional class of each gene/EST

Source

V. Bhattacherjee, P. Mukhopadhyay, S. Singh, C. Johnson, J. T. Philipose, C. P. Warner, R. M. Greene, and M. M. Pisano. Neural crest and mesoderm lineagedependent gene expression in orofacial development. Differentiation, 2007.

Examples

data(mouse)

## table of fuctional classifications
table(mouse$FC)

## hierarchical clustering of expression values
express <- mouse[,c("M1","M2","M3","NC1","NC2","NC3")]
rownames(express) <- mouse$ID
hc <- hclust(dist(express))
plot(hc)

clValid documentation built on Feb. 15, 2021, 1:08 a.m.