title: Automated annotation and quantification of metabolites in 1H NMR data of biological origin.
abstract: In (1)H NMR metabolomic datasets, there are often over a thousand peaks per spectrum, many of which change position drastically between samples. Automatic alignment, annotation, and quantification of all the metabolites of interest in such datasets have not been feasible. In this work we propose a fully automated annotation and quantification procedure which requires annotation of metabolites only in a single spectrum. The reference database built from that single spectrum can be used for any number of (1)H NMR datasets with a similar matrix. The procedure is based on the generalized fuzzy Hough transform (GFHT) for alignment and on Principal-components analysis (PCA) for peak selection and quantification. We show that we can establish quantities of 21 metabolites in several (1)H NMR datasets and that the procedure is extendable to include any number of metabolites that can be identified in a single spectrum. The procedure speeds up the quantification of previously known metabolites and also returns a table containing the intensities and locations of all the peaks that were found and aligned but not assigned to a known metabolite. This enables both biopattern analysis of known metabolites and data mining for new potential biomarkers among the unknowns.
authors.affiliation: Department of Analytical Chemistry, BioSysteMetrics Group, Stockholm University, Stockholm, Sweden.
authors.forename: Erik
authors.initials: E
authors.lastname: Alm
authors.forename: Tove
authors.initials: T
authors.lastname: Slagbrand
authors.forename: K Magnus
authors.initials: KM
authors.lastname: Aberg
authors.forename: Erik
authors.initials: E
authors.lastname: Wahlström
authors.forename: Ingela
authors.initials: I
authors.lastname: Gustafsson
authors.forename: Johan
authors.initials: J
authors.lastname: Lindberg
mesh_terms: D000596:Amino Acids / Q000032:analysis* / Q000378:metabolism; D000818:Animals; D000900:Anti-Bacterial Agents / Q000378:metabolism / Q000652:urine*; D017360:Arabidopsis / Q000737:chemistry* / Q000378:metabolism; D001331:Automation; D005001:Ethionine / Q000378:metabolism / Q000652:urine*; D009682:Magnetic Resonance Spectroscopy / Q000379:methods*; D055432:Metabolomics / Q000379:methods*; D025341:Principal Component Analysis; D051381:Rats; D013752:Tetracycline / Q000378:metabolism / Q000652:urine*
chemical_list: D000596:Amino Acids; D000900:Anti-Bacterial Agents; D013752:Tetracycline; D005001:Ethionine