MetAMDB: Metabolic Atom Mapping Database

Collin Starke; Andre Wegner

doi:10.3390/metabo12020122

MetAMDB: Metabolic Atom Mapping Database

Metabolites. 2022 Jan 27;12(2):122. doi: 10.3390/metabo12020122.

Authors

Collin Starke¹, Andre Wegner¹

Affiliation

¹ Department of Bioinformatics and Biochemistry, Braunschweig Integrated Centre of Systems Biology (BRICS), Technische Universität Braunschweig, Rebenring 56, 38106 Braunschweig, Germany.

Abstract

MetAMDB is an open-source metabolic atom mapping database, providing atom mappings for around 43,000 metabolic reactions. Each atom mapping can be inspected and downloaded either as an RXN file or as a graphic in SVG format. In addition, MetAMDB offers the possibility of automatically creating atom mapping models based on user-specified metabolic networks. These models can be of any size (small to genome-scale) and can subsequently be used in standard 13C metabolic flux analysis software.

Keywords: 13C metabolic flux analysis; AAM; RXN; atom mapping model; atom mappings; atom transitions; database; metabolic model; systems biochemistry.