caa a22 4500 445852909 CHVBK 20180317145418.0 cr unu---uuuuu 170323e20110901xx s 000 0 eng 10.1007/s00204-011-0705-2 doi (NATIONALLICENCE)springer-10.1007/s00204-011-0705-2 A survey of metabolic databases emphasizing the MetaCyc family [Elektronische Daten] [Peter Karp, Ron Caspi] Thanks to the confluence of genome sequencing and bioinformatics, the number of metabolic databases has expanded from a handful in the mid-1990s to several thousand today. These databases lie within distinct families that have common ancestry and common attributes. The main families are the MetaCyc, KEGG, Reactome, Model SEED, and BiGG families. We survey these database families, as well as important individual metabolic databases, including multiple human metabolic databases. The MetaCyc family is described in particular detail. It contains well over 1,000 databases, including highly curated databases for Escherichia coli, Saccharomyces cerevisiae, Mus musculus, and Arabidopsis thaliana. These databases are available through a number of web sites that offer a range of software tools for querying and visualizing metabolic networks. These web sites also provide multiple tools for analysis of gene expression and metabolomics data, including visualization of those datasets on metabolic network diagrams and over-representation analysis of gene sets and metabolite sets. Springer-Verlag, 2011 Metabolic databases nationallicence Bioinformatics nationallicence Metabolic pathways nationallicence Databases nationallicence Genome databases nationallicence Karp Peter Bioinformatics Research Group, SRI International, 333 Ravenswood Ave, 94025, Menlo Park, CA, USA aut Caspi Ron Bioinformatics Research Group, SRI International, 333 Ravenswood Ave, 94025, Menlo Park, CA, USA aut Archives of Toxicology Springer-Verlag 85/9(2011-09-01), 1015-1033 0340-5761 85:9<1015 2011 85 204 https://doi.org/10.1007/s00204-011-0705-2 text/html Onlinezugriff via DOI 1 review-article jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s00204-011-0705-2 text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Karp Peter Bioinformatics Research Group, SRI International, 333 Ravenswood Ave, 94025, Menlo Park, CA, USA aut NATIONALLICENCE 700 1- Caspi Ron Bioinformatics Research Group, SRI International, 333 Ravenswood Ave, 94025, Menlo Park, CA, USA aut NATIONALLICENCE 773 0- Archives of Toxicology Springer-Verlag 85/9(2011-09-01), 1015-1033 0340-5761 85:9<1015 2011 85 204 Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer