ArticleNucleic acids research2019
BioSamples database: an updated sample metadata hub.
Article in Nucleic acids research, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
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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.
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Who cites it
44 citing papers in PubMed.
- ClarID: a human-readable and compact identifier specification for biomedical metadata integration.Journal of biomedical semantics · 2026Article
- The Mpox contextual data specification package: a data curation toolkit to support collaborative pathogen genomic surveillance.Microbial genomics · 2026Article
- HoloFoodR: a statistical programming framework for holo-omics data integration workflows.Bioinformatics (Oxford, England) · 2025Article
- ClarID: A Human-Readable and Compact Identifier Specification for Biomedical Metadata Integration.medRxiv : the preprint server for health sciences · 2025Article
- Introducing the UK Crop Microbiome Cryobank data resource, AgMicrobiomeBase, with case studies and methods on metabarcoding analyses.Environmental microbiome · 2025Article
- An approach to making life sciences FAIR-FAIR-DS as a tool for Aspergillus fumigatus.Database : the journal of biological databases and curation · 2025Article
- Public Omics Explorer (POE): Enabling integrative semantic search across GEO omics datasets based on PubMed publications.Computational and structural biotechnology journal · 2025Article
- Guidelines for managing and using the digital phenotypes of pluripotent stem cell lines.Stem cell reports · 2024Review
- Toward Better Semantic Interoperability of Data Element Repositories in Medicine: Analysis Study.JMIR medical informatics · 2024Article
- Article
- A Standardized Nomenclature Design for Systematic Referencing and Identification of Animal Cellular Material.Animals : an open access journal from MDPI · 2024Article
- Recommendations for the collection and annotation of biosamples for analysis of biomarkers in neurofibromatosis and schwannomatosis clinical trials.Clinical trials (London, England) · 2024Review
- MiST 4.0: a new release of the microbial signal transduction database, now with a metagenomic component.Nucleic acids research · 2024Article
- Natural product biosynthetic potential reflects macroevolutionary diversification within a widely distributed bacterial taxon.mSystems · 2023Article
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- The International Virus Bioinformatics Meeting 2023.Viruses · 2023Article
- Computational exploration of the global microbiome for antibiotic discovery.bioRxiv : the preprint server for biology · 2023Article
- Determinants of associations between codon and amino acid usage patterns of microbial communities and the environment inferred based on a cross-biome metagenomic analysis.NPJ biofilms and microbiomes · 2023Article
- Ontologies for increasing the FAIRness of plant research data.Frontiers in plant science · 2023Review
- Large-scale genotyping and phenotyping of a worldwide winter wheat genebank for its use in pre-breeding.Scientific data · 2022Article
Corrections and comments
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Authors and funding
10 authors.
Funding
Abstract
The BioSamples database at EMBL-EBI provides a central hub for sample metadata storage and linkage to other EMBL-EBI resources. BioSamples has recently undergone major changes, both in terms of data content and supporting infrastructure. The data content has more than doubled from around 2 million samples in 2014 to just over 5 million samples in 2018. Fast, reciprocal data exchange was fully established between sister Biosample databases and other INSDC partners, enabling a worldwide common representation and centralization of sample metadata. The BioSamples platform has been upgraded to accommodate anticipated increases in the number of submissions via GA4GH driver projects such as the Human Cell Atlas and the EGA, as well as from mirroring of NCBI dbGaP data. The BioSamples database is now the authoritative repository for all INSDC sample metadata, an ELIXIR Deposition Database for Biomolecular Data and the EMBL-EBI sample metadata hub. To support faster turnaround for sample submission, and to increase scalability and resilience, we have upgraded the BioSamples database backend storage, APIs and user interface. Finally, the website has been redesigned to allow search and retrieval of records based on specific filters, such as 'disease' or 'organism'. These changes are targeted at answering current use cases as well as providing functionalities for future emerging and anticipated developments. Availability: The BioSamples database is freely available at http://www.ebi.ac.uk/biosamples. Content is distributed under the EMBL-EBI Terms of Use available at https://www.ebi.ac.uk/about/terms-of-use.
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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.