Evidence map›Paper›PMID 40748655›Full record

ArticleGigaScience2025

MetaboSERV-a platform for selecting, exchanging, and visualizing metabolomics data with controlled data access.

Tim Tucholski, Angela Maennel, Yacoub Abelard Njipouombe Nsangou, Sven Schuchardt, Matthias Gruber, Fabian Kellermeier, Katja Dettmer, Peter J Oefner, Wolfram Gronwald, Michael Altenbuchinger and 2 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in GigaScience, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

12 authors.

Tim TucholskiDepartment of Medical Bioinformatics, University Medical Center Göttingen, 37077 Göttingen, Germany.ORCID 0009-0003-9682-0774
Angela MaennelPeter L. Reichertz Institute for Medical Informatics of TU Braunschweig and Hannover Medical School, Hannover Medical School, 30625 Hannover, Germany.ORCID 0009-0003-5000-4288
Yacoub Abelard Njipouombe NsangouDepartment of Medical Bioinformatics, University Medical Center Göttingen, 37077 Göttingen, Germany.
Sven SchuchardtDepartment of Bio- and Environmental Analytics, Fraunhofer Institute for Toxicology and Experimental Medicine ITEM, 30625 Hannover, Germany.ORCID 0000-0002-4593-9324
Matthias GruberInstitute of Functional Genomics, University of Regensburg, 93053 Regensburg, Germany.
Fabian KellermeierInstitute of Functional Genomics, University of Regensburg, 93053 Regensburg, Germany.
Katja DettmerInstitute of Functional Genomics, University of Regensburg, 93053 Regensburg, Germany.ORCID 0000-0001-7337-2380
Peter J OefnerInstitute of Functional Genomics, University of Regensburg, 93053 Regensburg, Germany.ORCID 0000-0002-1499-3977
Wolfram GronwaldInstitute of Functional Genomics, University of Regensburg, 93053 Regensburg, Germany.ORCID 0000-0003-3646-0060
Michael AltenbuchingerDepartment of Medical Bioinformatics, University Medical Center Göttingen, 37077 Göttingen, Germany.ORCID 0000-0003-1102-6532
Jürgen DönitzDepartment of Medical Bioinformatics, University Medical Center Göttingen, 37077 Göttingen, Germany.ORCID 0000-0002-8401-8851
Helena U ZachariasPeter L. Reichertz Institute for Medical Informatics of TU Braunschweig and Hannover Medical School, Hannover Medical School, 30625 Hannover, Germany.ORCID 0000-0003-3633-1330

Funding

Federal Ministry of Education and Research 01ZX1912AFederal Ministry of Education and Research 01ZX1912CFederal Ministry of Education and Research 01ZX1912D
6 · The paper itself

Abstract

backgroundThe growing number of metabolomics studies, based on high-dimensional data measured by hyphenated mass spectrometry (MS) and/or nuclear magnetic resonance (NMR) spectroscopy, has sparked the creation of several public metabolomics data repositories. Each repository emphasizes different aspects regarding data selection and representation, but most offer only limited options for privacy-preserving data sharing.

resultsWe present MetaboSERV, an open-source, browser-based metabolomics platform dedicated to the selection, integration, and sharing of quantitative metabolomics data and metadata with controlled data access. MetaboSERV aims to aid researchers in analyzing their results by facilitating means to browse, visualize, and compare data across available datasets. It provides different access control functionalities, creating an environment in which data can be shared safely in a privacy-preserving manner to support collaborative and interdisciplinary research. Furthermore, it is designed to be extensible and adaptable to existing data management infrastructures through the creation of self-managed MetaboSERV instances, for which we provide the source code and a set of configurable Docker images.

conclusionsThe public MetaboSERV instance is available at https://metaboserv.ckdn.app, and the source code can be found at https://gitlab.gwdg.de/MedBioinf/metabolomics/metaboserv. The Research Resource Identifier (RRID) for MetaboSERV is SCR_025496.

Indexed as

Information DisseminationMetabolomicsSoftwareDatabases, FactualHumansMass Spectrometrycollaborative researchmass spectrometrymetabolomicsnuclear magnetic resonance spectroscopy(privacy-preserving) data sharing

Identifiers

PMID40748655
PMCPMC12315529

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Registered trials

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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.