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Drupal as a Semantic Web platform - ISWC 2012
 

Drupal as a Semantic Web platform - ISWC 2012

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This presentation describes some use cases and deployments of Drupal for building bio-medical platforms powered by semantic web technologies such as RDF, SPARQL, JSON-LD.

This presentation describes some use cases and deployments of Drupal for building bio-medical platforms powered by semantic web technologies such as RDF, SPARQL, JSON-LD.

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    Drupal as a Semantic Web platform - ISWC 2012 Drupal as a Semantic Web platform - ISWC 2012 Presentation Transcript

    • Drupal as a Semantic Web platformStéphane Corlosquet, Sudeshna Das, Emily Merrill, Paolo Ciccarese,and Tim ClarkMassachusetts General HospitalISWC 2012, Boston, USA – Nov 14th, 2012
    • Drupal● Dries Buytaert - small news site in 2000● Open Source - 2001● Content Management System● LAMP stack● Non-developers can build sites and publish content● Control panels instead of code http://www.flickr.com/photos/funkyah/2400889778
    • Who uses Drupal?
    • Who uses Drupal?
    • Who uses Drupal?
    • Who uses Drupal?
    • Who uses Drupal?
    • Who uses Drupal?
    • Who uses Drupal?
    • Who uses Drupal?
    • Who uses Drupal?
    • Who uses Drupal? http://buytaert.net/tag/drupal-sites
    • Drupal ● Open & modular architecture ● Extensible by modules ● Standards-based ● Low resource hosting ● Scalable http://drupal.org/getting-started/before/overview
    • Building a Drupal site http://www.flickr.com/photos/toomuchdew/3792159077/
    • Building a Drupal site● Create the content types you need Blog, article, wiki, forum, polls, image, video, podcast, e- commerce... (be creative) http://www.flickr.com/photos/georgivar/4795856532/
    • Building a Drupal site● Enable the features you want Comments, tags, voting/rating, location, translations, revisions, search... http://www.flickr.com/photos/skip/42288941/
    • Building a Drupal site
    • Building a Drupal siteThousands of freecontributed modules● Google Analytics● Wysiwyg● Captcha● Calendar● XML sitemap● Five stars● Twitter● ... http://www.flickr.com/photos/kaptainkobold/1422600992/
    • The Drupal Community http://www.flickr.com/photos/x-foto/4923221504/
    • Use Case #1:Stem Cell Commons http://stemcellcommons.org
    • Repository• New repository for stem cell data as part of Stem Cell Commons• Harvard Stem Cell Institute (HSCI): Blood and Cancer program system• Designed to incorporate - multiple stem cell types - multiple assay types - user requested features• Integrated with analytical tools• Enhanced search and browsing capabilities
    • Content types
    • Integrated with Analysis tools
    • What about RDF?
    • Drupal 7 default RDF Schema
    • SCC RDF Schema
    • Backend architecture
    • Modules used● Contributed module for more features ● RDF Extensions ● Serialization formats: RDF/XML, Turtle, N-Triples ● SPARQL ● Expose Drupal RDF data in a SPARQL Endpoint ● Features and packaging ● Build distributions / deployment workflow
    • SPARQL Endpoint● SPARQL Endpoint available at /sparql
    • SPARQL Endpoint● Need to query Drupal data across different classes from R● Need a standard query language● SQL?● Query Drupal data with SPARQL
    • Backend architecture (revisited)
    • SPARQL queryPREFIX obo: <http://purl.obolibrary.org/obo/>PREFIX mged: <http://mged.sourceforge.net/ontologies/MGEDontology.php#>PREFIX dc: <http://purl.org/dc/terms/>SELECT ?bioassay_title WHERE { ?experiment obo:OBI_0000070 ?bioassay; dc:title ?bioassay_title . ?bioassay mged:LabelCompound <http://exframe-dev.sciencecollaboration.org/taxonomy/term/588> .}GROUP BY ?bioassay_titleORDER BY ASC(dc:date)
    • Wrap up use case #1● Drupal is a good fit for building web frontends● Editing User Interfaces out of the box● Querying Data in SQL: ● not very friendly ● may not be appropriate / performant● Querying with SPARQL: ● Use the backend that match your needs ● ARC2 can be sufficient for prototyping and lightweight use cases
    • Use Case #2: Data LayersDomeo + Drupal
    • Domeo● Annotation Tool developed by MIND Informatics, Massachusetts General Hospital● Annotate HTML documents● Share annotations● Annotation Ontology (AO), provenance, ACL● JSON-LD Service to retrieve annotations● http://annotationframework.org/
    • Domeo
    • Domeo
    • Domeo
    • Domeo
    • JSON-LD● JSON for Linked Data● Client side as well as server side friendly● Browser Scripting: – Native javascript format – RDFa API in the DOM● Data can be fetched from anywhere: – Cross-Origin Resource Sharing (CORS) required● Clients can mash data
    • List of publications in Drupal
    • Can we layer personal annotations on top?
    • What do we have?● RDFa markup for each publication
    • RDFa API● Extract structured data from RDFa documents● Green Turtle: RDFa 1.1 library in Javascriptdocument.getElementsByType(http://schema.org/ScholarlyArticle);
    • RDFa API
    • Domeo + Drupal● Data mash up from independent sources
    • Domeo + Drupal
    • Wrap up use case #2● Another use case for exposing data as RDFa● RDFa and JSON-LD fit well together ● HTML → RDFa ● JSON → JSON-LD● CORS support not yet available everywhere ● Grails didnt have it ● Use JSONP instead
    • Thanks!● Stéphane Corlosquet ● scorlosquet@gmail.com ● @scorlosquet ● http://openspring.net/● MIND Informatics ● http://www.mindinformatics.org/