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HandWiki. BioSD. Encyclopedia. Available online: https://encyclopedia.pub/entry/37840 (accessed on 13 September 2026).
HandWiki. BioSD. Encyclopedia. Available at: https://encyclopedia.pub/entry/37840. Accessed September 13, 2026.
HandWiki. "BioSD" Encyclopedia, https://encyclopedia.pub/entry/37840 (accessed September 13, 2026).
HandWiki. (2022, December 02). BioSD. In Encyclopedia. https://encyclopedia.pub/entry/37840
HandWiki. "BioSD." Encyclopedia. Web. 02 December, 2022.
BioSD
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The content is sourced from: https://handwiki.org/wiki/Biology:BioSD

The BioSample Database (BioSD) is a database at European Bioinformatics Institute for the information about the biological samples used in sequencing. It stores submitter-supplied metadata about the biological materials from which data stored in the National Center for Biotechnology Information’s (NCBI) primary data archives are derived. NCBI’s archives hosts data pertaining to diverse types of samples from many species, and as such the BioSample database is similarly diverse. Examples of a BioSample include a primary tissue biopsy, an individual organism or an environmental isolate. The BioSample database captures sample metadata in a structured way by encouraging use of controlled sample attribute field name vocabularies. This metadata is key in giving the sample data context, allowing it to be more fully understood, reused, and enables aggregation of disparate data sets. Sample metadata is linked to relevant experimental data across many archival databases relieving submitter burden by enabling one-time submission of sample description. They then can reference that sample, when necessary, when making data deposits to other archives. BioSample records are indexed and searchable, supporting cross-database queries by sample description.

biological materials biological samples bioinformatics

References

  1. "About biosharing database of Genotypes and Phenotypes (dbGaP)". http://www.biosharing.org/biodbcore-000462. Retrieved 11 September 2014. 
  2. Barrett, Tanya (14 November 2013). "The NCBI Handbook [Internet 2nd edition"]. https://www.ncbi.nlm.nih.gov/books/NBK169436/. Retrieved 11 September 2014. 
  3. Faulconbridge, Adam; Tony Burdett; Marco Brandizi; Mikhail Gostev; Rui Pereira; Drashtti Vasant; Ugis Sarkans; Alvis Brazma et al. (20 November 2013). "Updates to BioSamples database at European Bioinformatics Institute". Nucleic Acids Research (England) 42: D50-2. doi:10.1093/nar/gkt1081. PMID 24265224.  http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=3965081
  4. Shepherd, R et al. (23 May 2011). "Data mining using the Catalogue of Somatic Mutations in Cancer BioMart". Database (Oxford) (England) 2011: bar018. doi:10.1093/database/bar018. PMID 21609966.  http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=3263736
  5. "BioSample Template Generator". https://submit.ncbi.nlm.nih.gov/biosample/template/. Retrieved 11 September 2014. 
  6. "BioSamples News". http://www.ebi.ac.uk/biosamples/help/news.html. Retrieved 11 September 2014. 
  7. "How to search BioSamples Database". http://www.ebi.ac.uk/biosamples/help/search.html. Retrieved 11 September 2014. 
  8. "BioSamples API Overview". https://www.ebi.ac.uk/biosamples/docs/references/api/. Retrieved 29 September 2018. 
  9. "BioSamples Database SPARQL Endpoint". http://www.ebi.ac.uk/rdf/services/biosamples/sparql. Retrieved 11 September 2014. 
  10. "Biosamples Database RDF". http://www.ebi.ac.uk/rdf/services/biosamples/. Retrieved 11 September 2014. 
  11. "About BioSamples". http://www.ebi.ac.uk/biosamples/about.html. Retrieved 10 September 2014. 
  12. "EBI BioSamples Database GitHub Project". https://github.com/EBIBioSamples. Retrieved 10 September 2014. 
  13. Gostev, Mikhail; Faulconbridge Adam; Brandizi Marco; Fernandez-Banet Julio; Sarkans Ugis; Brazma Alvis; Parkinson Helen (Jan 2012). "The BioSample Database (BioSD) at the European Bioinformatics Institute". Nucleic Acids Res. (England) 40 (1): D64-70. doi:10.1093/nar/gkr937. PMID 22096232.  http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=3245134
  14. Faulconbridge, A.; Burdett, T.; Brandizi, M.; Gostev, M.; Pereira, R.; Vasant, D.; Sarkans, U.; Brazma, A. et al. (2013). "Updates to BioSamples database at European Bioinformatics Institute". Nucleic Acids Research 42 (D1): D50–D52. doi:10.1093/nar/gkt1081. ISSN 0305-1048. PMID 24265224.  http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=3965081
  15. "BioSamples: Quick tour". Archived from the original on 10 September 2014. https://web.archive.org/web/20140910220412/http://www.ebi.ac.uk/training/online/courseogs/biosamples-quick-tour. Retrieved 10 September 2014. 
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