Bioschemas overview
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This document discusses Bioschemas, which aims to enable findability and interoperability of life sciences data on the web. It defines schemas using Schema.org for different types of life sciences data, including datasets and data catalogs. Bioschemas has over 200 members across 35 organizations that have deployed Bioschemas markup. It has ongoing work to increase adoption of Bioschemas across different types of life sciences resources and provide training and events for the community.
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Bioschemas overview
- 1. Alasdair J G Gray Heriot-Watt University/ELIXIR-UK Bioschemas Community http://bioschemas.org/people/ Bioschemas: Enabling Findability & Interoperability
- 5. Schema.org: Semantic markup for web pages http://bioschemas.org Picture: Carole Goble, Turing Lecture 2018 4 June 2018 5
- 6. Schema for Datasets and Catalogs Schema definitions: • Dataset: A body of structured information describing some topic(s) of interest http://schema.org/Dataset – 91 properties • DataCatalog: A collection of datasets http://schema.org/DataCatalog – 91 properties 4 Oct 2017 @bioschemas 6 https://schema.org/Dataset
- 7. Schema for Datasets and Catalogs Google Profile • Dataset: 9 basic properties • DataCatalog: 1 property • DataDownload: 2 properties • Many more Generic types • Events • Jobs • ... 4 Oct 2017 @bioschemas 7
- 8. Bioschemas • Schema.org for life sciences –Introduce life sciences types • Use case driven –Finding data –Presenting search results –Metadata exchange • Minimum properties – 6 • Link to domain ontologies Specification on top of schema.org Layer of constrains + documentation + extensions Specification Data model Minimum information Controlled vocabularies Cardinality Documentation Examples New (properties | types) 4 June 2018 http://bioschemas.org 8
- 9. 4 June 2018 http://bioschemas.org 9
- 12. Mapping SpecificationUse cases Mockup Adoption Testing Application Bioschemas Process 4 June 2018 http://bioschemas.org 12
- 13. Mapping SpecificationUse cases Mockup Adoption Testing Application Bioschemas Process 4 June 2018 http://bioschemas.org 13
- 14. Bioschemas Deployments http://bioschemas.org/liveDeploys/ 4 June 2018 http://bioschemas.org 14 35Live deploys 6M+Pages
- 15. TeSS: Bioschemas in action http://bioschemas.org • Contact • Description • End date • Event Type • Host Institution • Location • Name • Start Date • … Bioschemas Event:
- 16. Identifiers.org: Bioschemas DataCatalog in action (future) ELIXIR All Hands 2018, June 2018, Berlin, Germany • Description • Keywords • Name • Provider • URL Bioschema DataCatalog: • alternateName • citation • dateCreated • licence • …
- 17. Prototype: MarRef → BioSamples Without an API 4 June 2018 http://bioschemas.org 17 https://github.com/EBIBioSamples/bioschemas_marref_demo/blob/master/Summary.md
- 18. Exploiting Bioschemas Markup: Tooling • buzzbang –Crawl markup –Search interface 4 June 2018 http://bioschemas.org 18 • GoWeb –Specification generation • Validata –Validate markup
- 19. Bioschemas 2018 and Beyond • Increase Adoption –Core Data Resources –Deposition Databases –Node Resources –Community Resources http://bioschemas.org4 June 2018 19 • Staff Exchange Programme –Travel fund for Bioschema events –Staff transfer • Training and Events –ECCB Tutorial –NetTab –Biohackathon –SWAT4HCLS Tutorial
- 20. Acknowledgements http://bioschemas.org/people/ 4 June 2018 http://bioschemas.org 20 Join Bioschemas bioschemas.org/ howtojoin/