Bioschemas findability and interoperability
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This document discusses Bioschemas, which uses Schema.org vocabulary to add semantic markup to life sciences web pages in order to improve findability and interoperability of data. It notes that Bioschemas defines types and minimum properties for life sciences data, links to domain ontologies, and has a community-driven process for developing specifications. The document outlines the size of the Bioschemas community and number of specifications, deployments, and pages marked up, and proposes initiatives for increasing adoption, staff exchange, and providing training.
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Bioschemas findability and interoperability
- 1. Alasdair J G Gray Heriot-Watt University/ELIXIR-UK Bioschemas Community http://bioschemas.org/people/ Bioschemas: Enabling Findability & Interoperability
- 2. Schema.org: Semantic markup for web pages http://bioschemas.org Picture: Carole Goble, Turing Lecture 2018 4 June 2018 2
- 3. 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 3
- 4. 4 June 2018 http://bioschemas.org 4
- 6. Mapping SpecificationUse cases Mockup Adoption Testing Application Bioschemas Process 4 June 2018 http://bioschemas.org 6
- 7. Bioschemas Deployments http://bioschemas.org/liveDeploys/ 4 June 2018 http://bioschemas.org 7 30Live deploys 6M+Pages
- 8. TeSS: Bioschemas in action http://bioschemas.org
- 9. Prototype: MarRef BioSamples Without an API 4 June 2018 http://bioschemas.org 9 https://github.com/EBIBioSamples/bioschemas_marref_demo/blob/master/Summary.md
- 10. Exploiting Bioschemas Markup: Tooling • buzzbang –Crawl markup –Search interface • GoWeb –Specification generation • Validata –Validate markup 4 June 2018 http://bioschemas.org 10
- 11. Bioschemas 2018 and Beyond • Increase Adoption –Core Data Resources –Deposition Databases –Node Resources –Community Resources • Staff Exchange Programme –Travel fund for Bioschema events –Staff transfer • Training and Events –ECCB Tutorial –NetTab –Biohackathon http://bioschemas.org4 June 2018 11 Bioschemas Tutorial 15:30–17:30 Wednesday Peking Room
- 12. Acknowledgements http://bioschemas.org/people/ 4 June 2018 http://bioschemas.org 12 Join Bioschemas bioschemas.org/ howtojoin/ Join Bioschemas Steering Committee https://goo.gl/forms/ brrkVCmsDAAqkNJU2
Editor's Notes
- IMDb page for True Grit: looks like normal web page Markup in the page makes it interpretable by machines Allows content consumers to develop smart apps T B-L believes this is the Semantic Web 40% of web pages contain markup
- Currently no rich search results Would like something more like this
- Thriving grassroots community Over 200 people 18 Events 15 Profiles 30 Live deployments 6 Million+ pages
- Define use case Metadata crosswalk and mapping to schema.org Metadata providers Metadata registries Standards defining metadata Bioschemas specification Define minimum properties based on “finding” use cases Define cardinality and suggested controlled vocabularies Test with existing entries Adoption by data repositories and registries Applications
- Similar work in FAIRsharing Identifiers.org Biosamples
- Bioschemas markup added to MarRef pages Markup crawled using BuzzBang Data included as a BioSample Curation Depicted by the External Links