Open knowledge graph on clinical trials

VaidhyaMegha is building an open knowledge graph on clinical trials, comprising

• Clinical trial ids from across the globe
• MeSH ids for

1. Symptoms/Phenotype
2. Diseases

• PubMed Article ids
• Genotype(from Human Genome),

Specification

Below is a very brief specification

• Inputs

1. MeSH RDF
2. WHO’s clinical trials database – ICTRP.
3. US clinical trial registrydata from CTTI’s AACT database.
4. Data from clinical trial registries across the globe scraped from their websites’ ex: India

• Outputs

1. Clinical Trials RDF with below constituent ids and their relationships
2. MeSH, Clinical Trial, PubMed Article, Symptom/Phenotype, Genotype(from Human Genome)

Additionally, clinical trial -> clinical trial links across trial registries will also be discovered and added.

Source code

• Source code would be hosted here.

Current State

• v0.2 : Clinical trials are linked to the RDF nodes corresponding to the MeSH terms for conditions. Download the knowledge graph from here.

Reference

VaidhyaMegha’s prior work on

• clinical trial registries data linking.
• symptoms to diseases linking.
• phenotype to genotype linking.
• trials to research articles linking.

Last 3 are covered in the “examples” folder here. They were covered in separate public repos here earlier.

This post was later published on LinkedIn here.