A pipeline function to reproduce the main figures of network analyses in Wang et al 2012 for Arora S et al 2010

Description

This is a pipeline function for the user to reproduce the main figures regarding network analyses in Wang X et al., 2012 for RNAi screening data of Ewing's sarcoma in Arora S et al., 2010.

Usage

Arora2010.fig(what="ALL")

Arguments

Details

The user can run this function with a proper argument to reproduce the main figures regarding network analyses in Wang X et al., 2012 for RNAi screening data of Ewing's sarcoma in Arora S et al., 2010.

These are possible options to plot:

‘NULLfitting’: a figure illustrating the fitting results of a beta distribution to permuted RNAi screening data.

‘BMfitting’: a figure illustrating the fitting results of a beta-mixture model to the real RNAi screening data.

‘sigMod’: significant functional modules identified by in pvclust.

‘pathway’: a figure illustrating significantly overrepresented KEGG pathways.

Author(s)

Xin Wang xw264@cam.ac.uk

References

Arora S, Gonzales IM, Hagelstrom RT, et al. (2010). RNAi phenotype profiling of kinases identifies potential therapeutic targets in Ewing's sarcoma. Molecular Cancer, 9(1), 218.

Wang X, Castro MA, Mulder KW and Markowetz F (2012), Posterior association networks and enriched functional gene modules inferred from rich phenotypic perturbation screens, PLoS Computational Biology, doi:10.1371/journal.pcbi.1002566.

See Also

pvclust, RedeR

Examples

## Not run: 
Arora2010.fig("BMfitting")

## End(Not run)

Results