User:ProteinBoxBot/drug-disease links

From Wikidata
Jump to: navigation, search


Objective[edit]

This bot function should add and update Wikidata drug and disease items for Gene <> durg links.

Introduction[edit]

This bot is part of a family of bots to capture and maintain Genes, Diseases and Drugs in Wikidata. Originally started with the [[1]] where Genes and Proteins were added to Wikidata, the project gradually evolved in adding Diseases, Drugs and the relationships between the three.

Examples:

According to the UMLS National Drug File,

Cabergoline may be used to treat Hyperprolactinaemia

Cabergoline may be used to treat Parkinson's disease

Gameplan[edit]

This part of the bot will first aggregate drug<>disease links and then add these links to the appropriate Wikidata items.

  • Define properties required for gene<>drug links
  • Request the required properties and put them to community discussion
  • Code bot
  • Test runs in increments

Data sources[edit]

NDF-RT database

CHEMBL

https://github.com/olegursu/drugtarget (which has both indication and target information)

Properties[edit]

\--drugDiseaseAssociation
    +--exacerbates
    +--increasesRiskOfDisease
    +--causes (the disease results from taking the drug)
    +--prevents
    \--treats treats (aka 'medical condition treated')  
        +--treatsCauseOfDisease
        +--treatsSymptomOfDisease
           

Inverse properties (these go from disease to drug) (also recorded in the linked property definitions)[edit]

Output[edit]

The bot will add new drug<>disease links in its source databases to Wikidata. It will also modify existing Wikidata drug and disease items if new information becomes available in the original data sources.

Reporting queries[edit]

count of drug treats or causes statements