InteractOA – High-resolution references of ncRNA-mRNA interactions in Wikidata

Given at WikiCite 2018 - Berkeley (November 27th , 2018)

Transcript

1. InteractOA –
   High-resolution references of ncRNA-mRNA
   interactions in Wikidata
   Konrad U. Förstner
   ZB MED – Information Center for Life Sciences, Cologne, Germany &
   TH Köln, Cologne Germany
   WikiCite 2018 – November 27th, 2018, Berkeley
   

   View Slide

2. Problems with scientific databases
   • missing sources of stored statements – if available
   only on the level of journal articles
   • maintainer (e.g. PhD student) leaves
   ⇒ db not maintained anymore
   

   View Slide

3. Solution: Wikidata
   

   View Slide

4. Use case – bacterial ncRNA-mRNA interactions
   https://en.wikipedia.org/wiki/RyeE_RNA – CC0
   

   View Slide

5. Use case – bacterial ncRNA-mRNA interactions
   ncRNA regulates
   −
   −
   −
   −
   −
   → mRNA
   

   View Slide

6. Use case – bacterial ncRNA-mRNA interactions
   Can we refer to the exact sources (sentence, paragraph)
   of statements about ncRNA-mRNA interactions
   in Open Access articles from PubMedCentral?
   

   View Slide

7. Use case – bacterial ncRNA-mRNA interactions
   Yes, we can.
   https://tools.wmflabs.org/interactoa/
   

   View Slide

8. Hard work done by ...
   Muhammad Elhossary
   @muhammadhossary
   Q30045548
   

   View Slide

9. View Slide

10. View Slide

11. View Slide

12. View Slide

13. View Slide

14. Future steps
    • Some polishing required
    • Text mining to find further interaction partners
    

    View Slide

15. What are your questions?
    https://tools.wmflabs.org/interactoa/
    konrad.foerstner.org / @konradfoerstner
    zbmed.de / @ZB_MED
    th-koeln.de / @th_koeln
    https://www.flickr.com/photos/nateone/3768979925/ – CC-BY by flick user nateone
    

    View Slide