• National Metabolomics Data Repository

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    As of 04/10/21 a total of 1657 studies have been processed by the National Metabolomics Data Repository (NMDR). There are 1398 publicly available studies and the remainder (259) will be made available subject to their embargo dates.

    Recently released studies on NMDR

    ST001735 - The COVIDome Explorer Researcher Portal (Red Blood Cells); Homo sapiens; University of Colorado Anschutz Medical Campus

    ST001736 - The COVIDome Explorer Researcher Portal (blood plasma); Homo sapiens; University of Colorado Anschutz Medical Campus

    ST001260 - Metabolic changes of Fusobacterium nucleatum when co-cultured with other oral microbes (part-I); Fusobacterium nucleatum; Osaka University

    ST001519 - Stool metabolites of known identity profiled using hybrid nontargeted methods (part-I); Homo sapiens; Broad Institute of MIT and Harvard

  • Highlights

    MSCAT: Software tools application (April 7, 2021)

    MSCAT: Metabolomics Software CATalog is a dockerized application developed by the group led by Katerina Kechris and Debashis Ghosh at the University of Colorado Anschutz Medical Campus in conjunction with the Metabolomics Workbench, and as part of the NIH Common Fund Metabolomics Program. The application provides a database of metabolomics software tools and allows one to generate potential software workflows using an online interface.

    Higlights/News archive

  • Exemplary Studies

    A list of exemplary studies are listed here which adhere to the submission guidelines of Metabolomics Workbench. Specifically, publically available studies having all or most of the features below were identified as exemplary studies.

    • Well-written study summary
    • Detailed metadata for collection/treatment/chromatography/MS/NMR, etc.
    • Post-processing details
    • Presence of control samples
    • Raw data availability for samples and controls
    • One-to-one mapping of sample names to raw data file name
    • Internal standards (with measurements)
    • Clear and organized metabolite annotations

    These include different analysis (GC-MS, LC-MS, NMR) and species type. We recommend looking at these studies as a model example before submitting to Metabolomics Workbench.

NIH Common Fund Stage 2 Metabolomics Consortium Centers
Metabolomics Consortium Coordinating Center (M3C)
Richard Yost, U. of Florida
Metabolomics Workbench/NMDR
Shankar Subramaniam, UC San Diego
(this website)
Compound Identification Cores (CIDCs)
Arthur Edison, U. of Georgia
Alexey Nesvizhskii, U. of Michigan
Oliver Fiehn, UC Davis
Dean Paul Jones, Emory University
Thomas Metz, Pacific Northwest Nat. Lab.
Data and Tools Cores (DTCs)
John Weinstein, MD Anderson Cancer C.
Jamey Young, Vanderbilt University
Xiuxia Du, U. of North Carolina Charlotte
Shuzhao Li, Emory University
Alla Karnovsky, U. of Michigan
Katerina Kechris, U. of Colorado, Denver
Gary Patti, Washington U. at St. Louis

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