open-targets-search

Q: How do I install open-targets-search?

Run npx skills add https://github.com/yorkeccak/scientific-skills --skill open-targets-search in your project. The skills CLI detects the agents you use and copies the skill into the right folder. For Claude Code you can also place the skill folder at ~/.claude/skills/open-targets-search/ (personal) or .claude/skills/open-targets-search/ (project).

by yorkeccakEducation & Science

Search Open Targets drug-disease associations with natural language queries. Target validation powered by Valyu semantic search.

Installs: 127
Last 24h: —
Trending rank: —
Security: Not audited

Install

Works with every agent the skills CLI supports.

npx skills add https://github.com/yorkeccak/scientific-skills --skill open-targets-search

01
Install
Run the command in your project. The CLI asks which agents to install for.
02
Describe the task
Ask your agent for something this skill covers. It loads open-targets-search automatically when relevant.
03
Review the result
The agent follows the SKILL.md steps, scripts and references bundled with the skill.

SKILL.md

The instructions your agent reads when the skill is triggered.

Open Targets Search

Search the complete Open Targets database of drug-disease associations and target validation data using natural language queries powered by Valyu's semantic search API.

Why This Skill is Powerful

No API Parameter Parsing: Just pass natural language queries directly - no need to construct complex search parameters
Semantic Search: Understands the meaning of your query, not just keyword matching
Full-Text Access: Returns complete target-disease association data with evidence scores
Image Links: Includes data visualizations when available
Comprehensive Coverage: Access to all Open Targets drug-disease association data

Requirements

Node.js 18+ (uses built-in fetch)
Valyu API key from https://platform.valyu.ai ($10 free credits)

CRITICAL: Script Path Resolution

The scripts/search commands in this documentation are relative to this skill's installation directory.

Before running any command, locate the script using:

OPEN_TARGETS_SCRIPT=$(find ~/.claude/plugins/cache -name "search" -path "*/open-targets-search/*/scripts/*" -type f 2>/dev/null | head -1)

Then use the full path for all commands:

$OPEN_TARGETS_SCRIPT "JAK2 inhibitors" 15

API Key Setup Flow

When you run a search and receive "setup_required": true, follow this flow:

Ask the user for their API key: "To search Open Targets, I need your Valyu API key. Get one free ($10 credits) at https://platform.valyu.ai"
Once the user provides the key, run:
```
scripts/search setup <api-key>
```
Retry the original search.

When to Use This Skill

Target validation for diseases
Drug-disease associations
Target prioritization for research
Genetic evidence for targets
Target-disease pathway analysis
Therapeutic hypothesis validation

Output Format

{
  "success": true,
  "type": "open_targets_search",
  "query": "JAK2 inhibitors",
  "result_count": 10,
  "results": [
    {
      "title": "Target-Disease Association",
      "url": "https://platform.opentargets.org/...",
      "content": "Association data, evidence, scores...",
      "source": "open-targets",
      "relevance_score": 0.95,
      "images": ["https://example.com/pathway.png"]
    }
  ],
  "cost": 0.025
}

Processing Results

With jq

# Get association titles
scripts/search "query" 10 | jq -r '.results[].title'

# Get URLs
scripts/search "query" 10 | jq -r '.results[].url'

# Extract full content
scripts/search "query" 10 | jq -r '.results[].content'

Common Use Cases

Target Validation

# Find target evidence
scripts/search "kinase targets in inflammatory diseases" 50

Drug Repurposing

# Search for repurposing opportunities
scripts/search "drugs targeting IL-6 pathway" 20

Genetic Evidence

# Find genetic associations
scripts/search "loss of function variants protective effects" 15

Disease Mechanism

# Search for mechanistic insights
scripts/search "immune checkpoint targets in cancer" 25

Error Handling

All commands return JSON with success field:

{
  "success": false,
  "error": "Error message"
}

Exit codes:

0 - Success
1 - Error (check JSON for details)

API Endpoint

Base URL: https://api.valyu.ai/v1
Endpoint: /search
Authentication: X-API-Key header

Architecture

scripts/
├── search          # Bash wrapper
└── search.mjs      # Node.js CLI

Direct API calls using Node.js built-in fetch(), zero external dependencies.

Adding to Your Project

If you're building an AI project and want to integrate Open Targets Search directly into your application, use the Valyu SDK:

Python Integration

from valyu import Valyu

client = Valyu(api_key="your-api-key")

response = client.search(
    query="your search query here",
    included_sources=["valyu/valyu-open-targets"],
    max_results=20
)

for result in response["results"]:
    print(f"Title: {result['title']}")
    print(f"URL: {result['url']}")
    print(f"Content: {result['content'][:500]}...")

TypeScript Integration

import { Valyu } from "valyu-js";

const client = new Valyu("your-api-key");

const response = await client.search({
  query: "your search query here",
  includedSources: ["valyu/valyu-open-targets"],
  maxResults: 20
});

response.results.forEach((result) => {
  console.log(`Title: ${result.title}`);
  console.log(`URL: ${result.url}`);
  console.log(`Content: ${result.content.substring(0, 500)}...`);
});

See the Valyu docs for full integration examples and SDK reference.

FAQ

What does the open-targets-search skill do?

Search Open Targets drug-disease associations with natural language queries. Target validation powered by Valyu semantic search.

How do I install open-targets-search?

Run npx skills add https://github.com/yorkeccak/scientific-skills --skill open-targets-search in your project. The skills CLI detects the agents you use and copies the skill into the right folder. For Claude Code you can also place the skill folder at ~/.claude/skills/open-targets-search/ (personal) or .claude/skills/open-targets-search/ (project).

Which AI agents can use open-targets-search?

Any agent that supports the open Agent Skills format (a folder with a SKILL.md file), including Claude Code, Codex, Cursor, GitHub Copilot, Gemini CLI, Windsurf, Cline, OpenCode and more.

Is open-targets-search safe to install?

No partner security audit is available yet. Skills can run commands and scripts, so read the SKILL.md and any bundled files before installing.

Who maintains open-targets-search?

It is published by yorkeccak in yorkeccak/scientific-skills. It has 127 recorded installs.

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open-targets-search

Install

Install

Describe the task

Review the result

SKILL.md

Open Targets Search

Why This Skill is Powerful

Requirements

CRITICAL: Script Path Resolution

API Key Setup Flow

When to Use This Skill

Output Format

Processing Results

With jq

Common Use Cases

Target Validation

Drug Repurposing

Genetic Evidence

Disease Mechanism

Error Handling

API Endpoint

Architecture

Adding to Your Project

Python Integration

TypeScript Integration

FAQ

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