Resources

This page lists relevant resources to the OKBQA hackathon with specification to the contact person.

QA

• LODQA - Natural language query processing system over LOD (Jin-Dong Kim, Kevin Cohen)

• TBSL - Template-based Question Answering over RDF data

Text Annotation

• PubDictionaries - Dictionary-based text and term annotation (Jin-Dong Kim)

• NCBO Annotator - Annotates text using bioportal ontologies using exact or substring matches. (Michel Dumontier)

• DBpedia Spotlight - Looks for ~3.5M things of unknown or ~320 known types in text and tries to link them to their global unique identifiers in DBpedia.

Ontology Search

• BioPortal - Searches the repository of 6M terms in 375+ ontologies. (Michel Dumontier)

• OntoFinder - Biomedical ontology search and term collection (Jin-Dong Kim)

KBs and Linked Open Data Projects

Relevant Subsets

• DBpedia

• Bio2RDF - release 3 (2014)

  • CTD

  • ClinicalTrials

  • DrugBank

  • NDC

  • SIDER

• BioGateway - release 2 (2014)

  • UniProt

  • Entrez

  • OBO foundry ontologies

  • IntAct

  • GOA annotations

• EBI RDF

  • ChEMBL

  • Reactome

Benchmark Data

• QALD

  • • QALD3 - Korean (not validated data, made by Younggyun Hahm)

    • click and download

• BioASQ

• • NLQ50

    • English/Korean 50 questions

    • Question-Answer pair (and, relevant snippets for Korean only)

    • Data

    • Raw data (JSON): click

      • Easy to see data (JSON): click

• NLQ1 (Training data set for shared task)

  • • English/Korean 40 questions

    • Question-SPARQL pair

    • Data

      • Raw data (JSON): click

      • Easy to see data(JSON): click

    • NLQ1-test (Testing data for shared task) will release next OKBQA Hackathon

• • MERS Queries

    • 19 QA's composing "Things physicians need to know about the MERS" (Kousaku Okubo)

Tutorial Data

• Disambiguation

  • click and download

  • hands-on source code