title: MetaboID: a graphical user interface package for assignment of 1H NMR spectra of bodyfluids and tissues.
abstract: Nuclear magnetic resonance based measurements of small molecule mixtures continues to be confronted with the challenge of spectral assignment. While multi-dimensional experiments are capable of addressing this challenge, the imposed time constraint becomes prohibitive, particularly with the large sample sets commonly encountered in metabolomic studies. Thus, one-dimensional spectral assignment is routinely performed, guided by two-dimensional experiments on a selected sample subset; however, a publicly available graphical interface for aiding in this process is currently unavailable. We have collected spectral information for 360 unique compounds from publicly available databases including chemical shift lists and authentic full resolution spectra, supplemented with spectral information for 25 compounds collected in-house at a proton NMR frequency of 900 MHz. This library serves as the basis for MetaboID, a Matlab-based user interface designed to aid in the one-dimensional spectral assignment process. The tools of MetaboID were built to guide resonance assignment in order of increasing confidence, starting from cursory compound searches based on chemical shift positions to analysis of authentic spike experiments. Together, these tools streamline the often repetitive task of spectral assignment. The overarching goal of the integrated toolbox of MetaboID is to centralize the one dimensional spectral assignment process, from providing access to large chemical shift libraries to providing a straightforward, intuitive means of spectral comparison. Such a toolbox is expected to be attractive to both experienced and new metabolomic researchers as well as general complex mixture analysts.
authors.affiliation: Biophysics, University of Michigan, Ann Arbor, MI 48109-1055, USA. nmackinn@umich.edu
authors.forename: Neil
authors.initials: N
authors.lastname: MacKinnon
authors.forename: Bagganahalli S
authors.initials: BS
authors.lastname: Somashekar
authors.forename: Pratima
authors.initials: P
authors.lastname: Tripathi
authors.forename: Wencheng
authors.initials: W
authors.lastname: Ge
authors.forename: Thekkelnaycke M
authors.initials: TM
authors.lastname: Rajendiran
authors.forename: Arul M
authors.initials: AM
authors.lastname: Chinnaiyan
authors.forename: Ayyalusamy
authors.initials: A
authors.lastname: Ramamoorthy
mesh_terms: D045424:Complex Mixtures / Q000032:analysis; D003196:Computer Graphics; D016208:Databases, Factual; D009682:Magnetic Resonance Spectroscopy / Q000295:instrumentation*; D055432:Metabolomics / Q000379:methods*; D014584:User-Computer Interface; D057188:Workflow
chemical_list: D045424:Complex Mixtures