title: Quantifying gene networks with regulatory strengths.
abstract: A gene network is the collection of regulatory relationships between all genes in a genome. Gene networks are high-level descriptions of cellular biochemistry and show the phenomenological interactions between gene activities. These interactions are mediated by proteins and metabolites. In the gene network approach, only the transcriptome is considered and all biochemistry underlying gene-gene interactions is only implicitly present. In a previous work, we presented a method for inferring gene networks from experimental data, quantifying gene-gene interactions with regulatory strengths. Here, we show how to express these regulatory strengths in terms of properties of the whole biochemical network.
authors.affiliation: Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Blacksburg 24061, USA. alf@vbi.vt.edu
authors.forename: Alberto
authors.initials: A
authors.lastname: de la Fuente
authors.forename: Pedro
authors.initials: P
authors.lastname: Mendes
mesh_terms: D020869:Gene Expression Profiling; D005786:Gene Expression Regulation; D016678:Genome; D008433:Mathematics; D008957:Models, Genetic; D020543:Proteome
chemical_list: D020543:Proteome