tested_pairs

It contains two columns of gene names.

datasets

Functions to perform the following analyses: i) inferring epistasis from RNAi double knockdown data; ii) identifying gene pairs of multiple mutation patterns; iii) assessing association between gene pairs and survival; and iv) calculating the smallworldness of a graph (e.g., a gene interaction network). Data and analyses are described in Wang, X., Fu, A. Q., McNerney, M. and White, K. P. (2014). Widespread genetic epistasis among breast cancer genes. Nature Communications. 5 4828. <doi:10.1038/ncomms5828>.

Audrey Q Fu

cancerGI

Analyses of Cancer Gene Interaction

tested_pairs function

A data frame with 1508 observations on the following 2 variables.<dl>
 <dt><code>V1</code></dt>
<dd>a character vector</dd> <dt><code>V2</code></dt>
<dd>a character vector</dd> 
</dl>

Format

Gene pairs tested in the double knockdown assay. — tested_pairs

A data frame with 1508 observations on the following 2 variables.<dl>
 <dt><code>V1</code></dt>
<dd>a character vector</dd>

 <dt><code>V2</code></dt>
<dd>a character vector</dd>

 
</dl>

tested_pairs: Gene pairs tested in the double knockdown assay.

Description

Arguments

Format

References

Examples