ArticleBMC bioinformatics2023
The metabolomics workbench file status website: a metadata repository promoting FAIR principles of metabolomics data.
Article in BMC bioinformatics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
14 citing papers in PubMed.
- High-Quality Predicted Metabolite-Pathway Annotations Expand Pathway Coverage and Increase Enriched Pathway Detection Across Metabolomics Datasets.Metabolites · 2026Article
- A Major Update and Improved Validation Functionality in the mwtab Python Library and the Metabolomics Workbench File Status Website.Metabolites · 2026Article
- The data substrate of exposome intelligence: an interoperability profile for untargeted metabolomics.Frontiers in artificial intelligence · 2026Article
- Major Update and Improved Validation Functionality in the mwtab Python Library and the Metabolomics Workbench File Status Website.bioRxiv : the preprint server for biology · 2025Article
- High-Quality Predicted Pathway Annotations Greatly Improve Pathway Enrichment Analysis of Metabolomics Datasets.bioRxiv : the preprint server for biology · 2025Article
- Current status and challenges of multi-omics research using animal models of atherosclerosis.Journal of molecular and cellular cardiology plus · 2025Review
- Metabolome informs about the chemical exposome and links to brain health.Environment international · 2025Review
- Article
- MetaboSERV-a platform for selecting, exchanging, and visualizing metabolomics data with controlled data access.GigaScience · 2025Article
- Implementation of FAIR Practices in Computational Metabolomics Workflows-A Case Study.Metabolites · 2024Article
- CloMet: A Novel Open-Source and Modular Software Platform That Connects Established Metabolomics Repositories and Data Analysis Resources.Journal of proteome research · 2023Article
- MESSES: Software for Transforming Messy Research Datasets into Clean Submissions to Metabolomics Workbench for Public Sharing.Metabolites · 2023Article
- A proposed FAIR approach for disseminating geospatial information system maps.Scientific data · 2023Article
- A Case for Accelerating Standards to Achieve the FAIR Principles of Environmental Health Research Experimental Data.Environmental health perspectives · 2023Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
Abstract
backgroundAn updated version of the mwtab Python package for programmatic access to the Metabolomics Workbench (MetabolomicsWB) data repository was released at the beginning of 2021. Along with updating the package to match the changes to MetabolomicsWB's 'mwTab' file format specification and enhancing the package's functionality, the included validation facilities were used to detect and catalog file inconsistencies and errors across all publicly available datasets in MetabolomicsWB.
resultsThe MetabolomicsWB File Status website was developed to provide continuous validation of MetabolomicsWB data files and a useful interface to all found inconsistencies and errors. This list of detectable issues/errors include format parsing errors, format compliance issues, access problems via MetabolomicsWB's REST interface, and other small inconsistencies that can hinder reusability. The website uses the mwtab Python package to pull down and validate each available analysis file and then generates an html report. The website is updated on a weekly basis. Moreover, the Python website design utilizes GitHub and GitHub.io, providing an easy to replicate template for implementing other metadata, virtual, and meta- repositories.
conclusionsThe MetabolomicsWB File Status website provides a metadata repository of validation metadata to promote the FAIR use of existing metabolomics datasets from the MetabolomicsWB data repository.
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What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.