Package: FunNet
Version: 1.00-2
Date: 2008-06-19
Title: Integrative Functional Analysis of Transcriptional Networks 
Author: Corneliu Henegar <corneliu@henegar.info>
Maintainer: Corneliu Henegar <corneliu@henegar.info>
Depends: R (>= 2.5.0), ade4, cluster, Hmisc, nlme, sna, Cairo
Description: FunNet is an integrative tool for analyzing gene co-expression networks built from 
		microarray expression data. The analytic model implemented in this library
		involves two abstraction layers: transcriptional and functional (biological roles). 
		A functional profiling technique using Gene Ontology & KEGG annotations is 
		applied to extract a list of relevant biological themes from 
		microarray expression profiling data. Afterwards multiple-instance 
		representations are built to relate significant themes to their 
		transcriptional instances (i.e. the two layers of the model). An adapted
		non-linear dynamical system model is used to quantify the proximity of relevant 
		genomic themes based on the similarity of the expression profiles of their gene instances.
		Eventually an unsupervised multiple-instance clustering procedure, relying on 
		the two abstraction layers, is used to identify the structure of the co-expression
		network composed from modules of functionally related transcripts. Functional 
		and transcriptional maps of the co-expression network are provided separately
		together with detailed information on the network centrality of related transcripts
		and genomic themes.
License: GPL (>= 2)
URL: http://corneliu.henegar.info/FunNet.htm,
	http://www.geneontology.org/GO.tools.microarray.shtml#funnet,
	http://www.funnet.info,
	http://www.funnet.ws
Packaged: Thu Jun 19 15:15:46 2008; chenegar
