TrypanoCyc: a community-led biochemical pathways database for Trypanosoma brucei.
Bottom Line: The metabolic network of a cell represents the catabolic and anabolic reactions that interconvert small molecules (metabolites) through the activity of enzymes, transporters and non-catalyzed chemical reactions.Our understanding of individual metabolic networks is increasing as we learn more about the enzymes that are active in particular cells under particular conditions and as technologies advance to allow detailed measurements of the cellular metabolome.Metabolic network databases are of increasing importance in allowing us to contextualise data sets emerging from transcriptomic, proteomic and metabolomic experiments.
Affiliation: Institut National de la Recherche Agronomique (INRA), UMR1331, TOXALIM (Research Centre in Food Toxicology), Université de Toulouse, Toulouse, France.Show MeSH
Related in: MedlinePlus
Mentions: To complement the classical pathway-oriented BioCyc representation of data, we also offer a novel way to visualize the content of TrypanoCyc via our MetExplore web server (21) (for step by step instructions see Supplementary Data S3). Each pathway page contains a hyperlink (Figure 3a), that opens MetExplore with the selected pathway (Figure 3b). Importantly, the MetExplore viewer takes into account the localization of reactions. For example, Figure 3b shows how the glycolytic pathway is divided into two compartments (glycosome and cytosol represented by green and red boxes, respectively).
Affiliation: Institut National de la Recherche Agronomique (INRA), UMR1331, TOXALIM (Research Centre in Food Toxicology), Université de Toulouse, Toulouse, France.