ELIXIR webinar. schema.org structured data for life sciences. Events, training materials, organizations, 16 March 2016, 14:00 GMT

Transcription

1 ELIXIR webinar 16 March 2016, 14:00 GMT schema.org structured data for life sciences Events, training materials, organizations,

2 Structured data? A standard way to annotate content so machines can understand it

3 BioSchemas Specification on top of schema.org Extra layer of quality, compliance and support Specification Data model Minimum information Controlled vocabularies Cardinality New (properties types) Documentation Examples

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5 Data model Minimum information Controlled vocabularie Cardinality New properties

6 Examples

7 Content types Groups & guidelines

8 Common properties Minimum agreement among types Events Organizations Training materials People profiles Standards Facilitate links and contextualize Identifier, Title, Description, Author, Topics, Audience, Publication Date,

9 Common properties Minimum agreement among types Events Organizations Minimum information for one content type Training materials People profiles Standards Facilitate links and contextualize Identifier, Title, Description, Author, Topics, Audience, Publication Date,

10 Common properties Minimum agreement among types Events Organizations Common properties among content types Training materials People profiles Standards Facilitate links and contextualize Identifier, Title, Description, Author, Topics, Audience, Publication Date,

11 Schema.org Structured data markup for web pages

12 Metadata model ie. Recipe type

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14 <div itemscope itemtype=" <div itemprop="nutrition itemscope itemtype=" Nutrition facts: <span itemprop="calories">144 kcal</span>, </div> Ingredients: - <span itemprop="recipeingredient">800g small new potato</span> - <span itemprop="recipeingredient">3 shallot</span>...

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16 Many data types

17 Content published in HTML 31% webpages schema.org compliant

18 Community agreements

19 Agreements on a common metadata description for life science events

20 Results 27 organizations 11 sites iann EBI Bioinformatics.ca ISCB BioIT EMBnet SIB Biometer GOBLET ABN on-course Exchange Format icalendar vcard Minimum Information guideline 42 fields 13 minimum 13 recommended 16 optional Ontology Type Topic Audience Eligibility Status

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23 Plan 1. Align existing agreements to schema.org 2. Write a specification per type 3. Open specification review to BioSchemas communities 4. Open specification review to other organizations 5. Consult and push new properties to Schema.org 6. Publish and actively promote agreements (specification versions)

24 Applications Examples

25 Concept integration and search Content Content Content Schema.org Schema.org Schema.org integration

26 TeSS, ELIXIR training portal

27 BioSchemas / Schema.org for biological types?

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29 Metadata searching All-Hands, 10 March, Barcelona, Spain Sessions Microtagging for biological entries and datasets Brainstorming and exchange of ideas Federated metadata searching Presentation and review the state of the art Hands-on searchathon testing, adoption or pushing forward ideas Expected outcomes Idea for a project proposal for NIH/BD2K and ELIXIR A review of existing efforts in ELIXIR and NIH/BD2K Tests, prototypes, examples to engage community Aligned with Force2016 searchathon April 17, Portland

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31 Acknowledgments BioSchemas community Group chairs Community Premysl Velek Event Martin Cook Training materials Aleksandra Nenadic & Gabriella Rustici Organization Richard Holland & Rafael C Jimenez Person Niall Beard Standard A Gonzalez-Beltran & P McQuilton Organization representatives ELIXIR Premysl Velek Pistoia Alliance Richard Holland GOBLET Terri Attwood BBMRI Michaela Mayrhofer TeSS Aleksandra Nenadic BioSharing SA Sansone, A Gonzalez-Beltran, P McQuilton, P Rocca-Serra NIH BD2K biocaddie SA Sansone, A Gonzalez-Beltran, Jeff Grethe

32 Thanks for your attention! bioschema.org

33 ELIXIR videos