Evidence map›Paper›PMID 41231754›Full record

ArticleNucleic acids research2026

BioSamples database: the global hub for sample metadata and multi-omics integration.

Dipayan Gupta, Isuru Liyanage, Yasset Perez-Riverol, Enrique Sapena Ventura, Wei Kheng Teh, Tim Van Den Bossche, Senthilnathan Vijayaraja, Amnon Khen, Ugis Sarkans, Tony Burdett and 1 more

Abstract read
In one paragraph

Article in Nucleic acids research, 2026. 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. Review
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

11 authors.

Dipayan GuptaEuropean Bioinformatics Institute, European Molecular Biology Laboratory, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.
Isuru LiyanageEuropean Bioinformatics Institute, European Molecular Biology Laboratory, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.ORCID 0000-0002-4839-5158
Yasset Perez-RiverolEuropean Bioinformatics Institute, European Molecular Biology Laboratory, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.ORCID 0000-0001-6579-6941
Enrique Sapena VenturaEuropean Bioinformatics Institute, European Molecular Biology Laboratory, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.
Wei Kheng TehEuropean Bioinformatics Institute, European Molecular Biology Laboratory, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.
Tim Van Den BosscheVIB-UGent Center for Medical Biotechnology, VIB, Ghent 9000, Belgium.ORCID 0000-0002-5916-2587
Senthilnathan VijayarajaEuropean Bioinformatics Institute, European Molecular Biology Laboratory, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.
Amnon KhenEuropean Bioinformatics Institute, European Molecular Biology Laboratory, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.
Ugis SarkansEuropean Bioinformatics Institute, European Molecular Biology Laboratory, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.
Tony BurdettEuropean Bioinformatics Institute, European Molecular Biology Laboratory, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.
Jeena RajanEuropean Bioinformatics Institute, European Molecular Biology Laboratory, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.ORCID 0000-0002-3613-0013

Funding

Biotechnology and Biological Sciences Research Council BB/X001911/1European Molecular Biology LaboratoryResearch Foundation Flanders 1286824NResearch Foundation Flanders V439325NSilicon Valley Community FoundationWellcome TrustWellcome Trust 208 391/Z/17/ZWellcome Trust 223 745/Z/21/Z
6 · The paper itself

Abstract

The BioSamples database (https://www.ebi.ac.uk/biosamples/) at the European Bioinformatics Institute (EMBL-EBI) is a core infrastructure resource that provides a centralized platform for the storage, curation, and dissemination of biological sample metadata. BioSamples holds sample descriptions across diverse datasets, enhancing their reusability and integrability in accordance with the FAIR (findable, accessible, interoperable, and reusable) principles. BioSamples serves as the central place to store the sample metadata for multiple repositories and archives at EMBL-EBI, including the European Nucleotide Archive, ArrayExpress, and the European Phenome-Genome Archive. In this article, we outline technical updates made to support increased sample registration and provide a better user experience. We describe four use cases whereby different communities have leveraged BioSamples to connect multi-omics data and enable the creation of public data portals and data status trackers. BioSamples is freely available, and its content is distributed under the EMBL-EBI Terms of Use available at https://www.ebi.ac.uk/about/terms-of-use. The BioSamples code is available at https://github.com/EBIBioSamples/biosamples-v4 and https://doi.org/10.5281/zenodo.17304021 and is distributed under the Apache 2.0 license.

Indexed as

Computational BiologyDatabases, GeneticMetadataGenomicsHumansInternetMultiomicsSoftware

Identifiers

PMID41231754
PMCPMC12807758

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.