ArticleBioinformatics (Oxford, England)2022
metaboprep: an R package for preanalysis data description and processing.
Article in Bioinformatics (Oxford, England), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- Multivariate analysis of metabolomic data to identify biological pathways modified by a clinical intervention.Metabolomics : Official journal of the Metabolomic Society · 2026Article
- Untargeted metabolomics data in the By-Band-Sleeve trial and ALSPAC: integrating clinical trial and population cohort data.Wellcome open research · 2025Article
- DNA methylation models of protein abundance across the lifecourse.Clinical epigenetics · 2024Article
- Prediagnostic Plasma Nutrimetabolomics and Prostate Cancer Risk: A Nested Case-Control Analysis Within the EPIC Study.Cancers · 2024Article
- The association between body mass index and metabolite response to a liquid mixed meal challenge: a Mendelian randomization study.The American journal of clinical nutrition · 2024Article
- The metabolomic signature of weight loss and remission in the Diabetes Remission Clinical Trial (DiRECT).Diabetologia · 2024Article
- Using trials of caloric restriction and bariatric surgery to explore the effects of body mass index on the circulating proteome.Scientific reports · 2023Article
- A multivariant recall-by-genotype study of the metabolomic signature of BMI.Obesity (Silver Spring, Md.) · 2022Article
- Inflammation proteomics datasets in the ALSPAC cohort.Wellcome open research · 2022Article
Corrections and comments
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Authors and funding
8 authors.
Funding
Abstract
motivationMetabolomics is an increasingly common part of health research and there is need for preanalytical data processing. Researchers typically need to characterize the data and to exclude errors within the context of the intended analysis. Whilst some preprocessing steps are common, there is currently a lack of standardization and reporting transparency for these procedures.
resultsHere, we introduce metaboprep, a standardized data processing workflow to extract and characterize high quality metabolomics datasets. The package extracts data from preformed worksheets, provides summary statistics and enables the user to select samples and metabolites for their analysis based on a set of quality metrics. A report summarizing quality metrics and the influence of available batch variables on the data are generated for the purpose of open disclosure. Where possible, we provide users flexibility in defining their own selection thresholds. AVAILABILITY AND IMPLEMENTATION: metaboprep is an open-source R package available at https://github.com/MRCIEU/metaboprep. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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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.