Ovarian cancer CGH data

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Description

This is a data set obtained using the comparative genomic hybridization technique (CGH) on samples from papillary serous cystadenocarcinoma of the ovary. Only the seven most commonly occurring events are given.

Usage

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Format

A data frame with 87 observations on the following 7 variables.

8q+

a 0/1 indicator of the presence of the ‘8q+’ event

3q+

a 0/1 indicator of the presence of the ‘3q+’ event

5q-

a 0/1 indicator of the presence of the ‘5q-’ event

4q-

a 0/1 indicator of the presence of the ‘4q-’ event

8p-

a 0/1 indicator of the presence of the ‘8p-’ event

1q+

a 0/1 indicator of the presence of the ‘1q+’ event

Xp-

a 0/1 indicator of the presence of the ‘Xp-’ event

Details

The CGH technique uses fluorescent staining to detect abnormal (increased or decreased) number of DNA copies. Often the results are reported as a gain or loss on a certain arm, without further distinction for specific regions. It is common to denote a change in DNA copy number on a specific chromosome arm by prefixing a “-” sign for decrease and a “+” for increase. Thus, say, -3q denotes abnormally low DNA copy number on the q arm of the 3rd chromosome.

Source

http://www.ncbi.nlm.nih.gov/sky/

Examples

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  data(ov.cgh)
  heatmap(data.matrix(ov.cgh), Colv=NA, scale="none", col=c("gray90","red"))