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National Metabolomics Data Repository
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StudiesAs of 05/17/21 a total of 1710 studies have been processed by the National Metabolomics Data Repository (NMDR). There are 1437 publicly available studies and the remainder (273) will be made available subject to their embargo dates.
Recently released studies on NMDR
ST001759 - Application of the redox metabolite detection method for mouse liver; Mus musculus; Boston Children's Hospital, Harvard Medical School
ST001760 - Application of the redox metabolite detection method for mouse kidney; Mus musculus; Boston Children's Hospital, Harvard Medical School
ST001761 - Application of the redox metabolite detection method for mouse biofluids; Mus musculus; Boston Children's Hospital, Harvard Medical School
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Summary reports on metabolites in NMDR
Typical metabolite concentration ranges via MetStat in NMDR (April 22, 2021)
View typical concentration ranges for a metabolite depending on species, tissue/organ, analysis method, etc. using MetStat. For example, what are typical concentrations of metabolites detected in human blood samples by MS or NMR? MetStat provides summary information across over 1,400 studies in NMDR. Here is a quick tutorial.
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NMDR studies and Jupyter Notebooks
Analyze Workbench studies via Python-based Jupyter Notebooks. Launch notebooks on Binder or download notebooks from GitHub and run them locally.
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Lipid Notation in RefMet and lipid m/z calculation tools
View table of over 170 revised lipid abbreviations covered by RefMet, including structure examples and m/z calculation tools for a variety of adducts.
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Convert your metabolite name to standardized nomenclature via RefMet
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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.
