Format

Send to

Choose Destination
J Mass Spectrom. 2016 Jul;51(7):461-75. doi: 10.1002/jms.3782.

Training in metabolomics research. I. Designing the experiment, collecting and extracting samples and generating metabolomics data.

Author information

1
Department of Biochemistry and Molecular Genetics, University of Alabama at Birmingham, Birmingham, AL, 35294, USA.
2
Department of Pharmacology and Toxicology, School of Medicine, University of Alabama at Birmingham, Birmingham, AL, 35294, USA.
3
Targeted Metabolomics and Proteomics Laboratory, University of Alabama at Birmingham, Birmingham, AL, 35294, USA.
4
Scripps Research Institute, La Jolla, CA, 92307, USA.
5
Department of Pediatrics, University of Alabama at Birmingham, Birmingham, AL, 35294, USA.
6
HudsonAlpha Institute, Huntsville, AL, 35806, USA.
7
Section on Statistical Genetics, School of Public Health, University of Alabama at Birmingham, Birmingham, AL, 35294, USA.
8
Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Charlotte, NC, 28223, USA.
9
Department of Microbiology, University of Alabama at Birmingham, Birmingham, AL, 35294, USA.
10
Department of Medicine, Emory University, Atlanta, GA, 30322, USA.
11
RTI International, Research Triangle Park, Durham, NC, 27709, USA.

Abstract

The study of metabolism has had a long history. Metabolomics, a systems biology discipline representing analysis of known and unknown pathways of metabolism, has grown tremendously over the past 20 years. Because of its comprehensive nature, metabolomics requires careful consideration of the question(s) being asked, the scale needed to answer the question(s), collection and storage of the sample specimens, methods for extraction of the metabolites from biological matrices, the analytical method(s) to be employed and the quality control of the analyses, how collected data are correlated, the statistical methods to determine metabolites undergoing significant change, putative identification of metabolites and the use of stable isotopes to aid in verifying metabolite identity and establishing pathway connections and fluxes. The National Institutes of Health Common Fund Metabolomics Program was established in 2012 to stimulate interest in the approaches and technologies of metabolomics. To deliver one of the program's goals, the University of Alabama at Birmingham has hosted an annual 4-day short course in metabolomics for faculty, postdoctoral fellows and graduate students from national and international institutions. This paper is the first part of a summary of the training materials presented in the course to be used as a resource for all those embarking on metabolomics research. The complete set of training materials including slide sets and videos can be viewed at http://www.uab.edu/proteomics/metabolomics/workshop/workshop_june_2015.php.

KEYWORDS:

CE-MS; GC-MS; LC-MS; NMR; metabolomics; sample extraction; study design

PMID:
27434804
PMCID:
PMC4964969
DOI:
10.1002/jms.3782
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for PubMed Central
Loading ...
Support Center