ViaComplex: software for landscape analysis of gene expression networks in genomic context.
ViaComplex is an open-source application that builds landscape maps of gene expression networks. The motivation for this software comes from two previous publications (Nucleic Acids Res., 35, 1859-1867, 2007; Nucleic Acids Res., 36, 6269-6283, 2008). The first article presents a network-based model of genome stability pathways where we defined a set of genes that characterizes each genetic system. In the second article we analyzed this model by projecting functional information from several experiments onto the gene network topology. In order to systematize the methods developed in these articles, ViaComplex provides tools that may help potential users to assess different high-throughput experiments in the context of six core genome maintenance mechanisms. This model illustrates how different gene networks can be analyzed by the same algorithm.


BACKGROUND
(http://lief.if.ufrgs.br/pub/biosoftwares/viacomplex).
Castro
Mauro A A
MA
Unidade de Bioinformática, Departamento de Bioquímica, Instituto de Física, Núcleo de Bioinformática, Departamento de Genética, Universidade Federal do Rio Grande do Sul, Porto Alegre, Brazil. mauro@ufrgs.br
Filho
José L Rybarczyk
JL
Dalmolin
Rodrigo J S
RJ
Sinigaglia
Marialva
M
Moreira
José C F
JC
Mombach
José C M
JC
de Almeida
Rita M C
RM
D015870:Gene Expression; D020869:Gene Expression Profiling / Q000379:methods*; D053263:Gene Regulatory Networks / Q000235:genetics*; D016678:Genome / Q000235:genetics*; D012984:Software; D014584:User-Computer Interface