• National Metabolomics Data Repository

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    As of 11/28/20 the National Metabolomics Data Repository (NMDR) contains 1263 publicly available studies.
    A total of 1532 studies have been processed by the NMDR and the remainder (269) will be made available subject to their embargo dates.

    Recently released studies on NMDR

    ST001378 - Global metabolomics of COPD2020; Homo sapiens; Seoul National University Hospital

    ST001512 - Diel investments in phytoplankton metabolite production influenced by associated heterotrophic bacteria; Thalassiosira pseudonana; University of Georgia

    ST001498 - Interday validation of of developed quantatation method; Fecal Bacteria; Helmholtz Centre for Environmental Research - UFZ

  • Highlights

    November 25, 2020

    MetENPWeb: Try MetENPWeb for metabolite class enrichment and species-specific KEGG pathways.
    The workflow is also available as an R package from GitHub . Read more on biorxiv

    RefMet Correspondence:
    Please read our new RefMet correspondence in Nature Methods

    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.

  • Metabolomics News


    • Jupyter Notebooks has been released to analyze studies

      Analysis of all the studies in Metabolomics workbench can now be done by launching Jupyter Notebooks The notebooks can be launched at Binder. Alternatively, you may download notebooks from Github repository.

    • Individual mwTab file for all studies can now be viewed and downloaded as JSON format.

    news archive

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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