Using bioconductor package BiGGR for metabolic flux estimation based on gene expression changes in brain.

ABSTRACT: Predicting the distribution of metabolic fluxes in biochemical networks is of major interest in systems biology. Several databases provide metabolic reconstructions for different organisms. Software to analyze flux distributions exists, among others for the proprietary MATLAB environment. Given the large user community for the R computing environment, a simple implementation of flux analysis in R appears desirable and will facilitate easy interaction with computational tools to handle gene expression data. We extended the R software package BiGGR, an implementation of metabolic flux analysis in R. BiGGR makes use of public metabolic reconstruction databases, and contains the BiGG database and the reconstruction of human metabolism Recon2 as Systems Biology Markup Language (SBML) objects. M

SUBMITTER: Gavai AK 

PROVIDER: S-EPMC4373785 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature