opentargets-database

Query Open Targets for target–disease associations using GraphQL requests.

21|2|Updated Dec 8, 2025
One-click install
npx skills add https://github.com/silverstein/claude-scientific-skills-desktop --skill opentargets-database-silverstein
Or copy as Structured Prompt for Agent
Please help me install this Agent Skill.
Skill: opentargets-database
Source: https://github.com/silverstein/claude-scientific-skills-desktop/tree/main/corpus/opentargets-database
Command: npx skills add https://github.com/silverstein/claude-scientific-skills-desktop --skill opentargets-database-silverstein

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires requests, json, typing, and includes scripts (resource) and references (resource) components.

What problem does it solve?

It helps you identify and prioritize therapeutic targets by retrieving target–disease associations, tractability and safety signals, supporting genetics/omics/literature evidence, and known drug context from the Open Targets Platform.

Core Features & Use Cases

  • Therapeutic target discovery workflows: search for targets (Ensembl), diseases (EFO), and drugs (ChEMBL) to quickly map candidates to indications.
  • Evidence-driven association lookup: retrieve detailed evidence records for specific target–disease pairs across genetic, somatic, pathway, expression, animal-model, and literature sources.
  • Target prioritization and drug repurposing support: review tractability and safety liabilities alongside genetic constraint and known-drug mechanisms/phases for faster hypothesis building.

Quick Start

Ask the AI to query Open Targets by providing a disease EFO ID and return the top associated targets and the supporting evidence types.

Frequently Asked Questions about opentargets-database

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I retrieve target-disease evidence from Open Targets for therapeutic target discovery?

You can retrieve target-disease evidence by querying the Open Targets GraphQL endpoint with specific entity IDs like Ensembl for targets and EFO for diseases, selecting desired evidence fields with pagination-safe querying.

What types of evidence associations can I gather for drug repurposing workflows?

Drug repurposing workflows can gather evidence associations across genetic, somatic, pathway, expression, animal-model, and literature sources, alongside tractability, safety liabilities, and known-drug mechanisms.

Can I query Open Targets using ChEMBL IDs to find known drug mechanisms and phases?

Yes, you can query Open Targets using ChEMBL IDs for drugs alongside Ensembl IDs for targets and EFO IDs for diseases to map candidates to indications and review known drug phases.

How does genetic constraint data support target prioritization in drug discovery?

Genetic constraint data supports target prioritization by allowing you to review tractability and safety liabilities alongside multi-source evidence workflows, enabling faster therapeutic hypothesis building.

Do I need to construct GraphQL requests manually to search for Open Targets associations?

Yes, querying Open Targets requires constructing GraphQL requests to the endpoint with correct entity IDs and selecting evidence fields with pagination-safe querying to retrieve associations.

What are the limitations of using Open Targets evidence retrieval for target identification?

Limitations include the strict requirement for correct entity IDs across formats like Ensembl, EFO, and ChEMBL, and the need for pagination-safe querying to handle large evidence datasets.