# Phenotype By Hpo Id

> Retrieve phenotype information from Monarch Initiative using HPO (Human Phenotype Ontology) IDs to understand disease manifestations.

- Skill: `gabrielmoreira/phenotype-by-hpo-id` (Agent Skill)
- Install (CLI): `npx skillmds@latest add gabrielmoreira/phenotype-by-hpo-id`
- Raw SKILL.md: https://api.skillmd.com/api/skills/gabrielmoreira/phenotype-by-hpo-id/raw
- Safety review: pending (external: skill-scanner PASS, skillspector PASS)
- Works with: Claude Code, Claude.ai, OpenAI Codex
- Category: Coding & Dev Tools
- License: MIT license
- Author: gabrielmoreira (https://skillmd.com/u/gabrielmoreira)
- Updated: 2026-09-09
- Page: https://skillmd.com/skills/gabrielmoreira/phenotype-by-hpo-id

---


# Phenotype Retrieval by HPO ID

## Usage

### 1. MCP Server Definition

```python
import asyncio
import json
from contextlib import AsyncExitStack
from mcp.client.streamable_http import streamablehttp_client
from mcp import ClientSession

class OrigeneClient:
    """Origene-Monarch MCP Client"""

    def __init__(self, server_url: str, api_key: str):
        self.server_url = server_url
        self.api_key = api_key
        self.session = None

    async def connect(self):
        try:
            self.transport = streamablehttp_client(
                url=self.server_url,
                headers={"SCP-HUB-API-KEY": self.api_key}
            )
            self._stack = AsyncExitStack()
            await self._stack.__aenter__()
            self.read, self.write, self.get_session_id = await self._stack.enter_async_context(self.transport)
            self.session_ctx = ClientSession(self.read, self.write)
            self.session = await self._stack.enter_async_context(self.session_ctx)
            await self.session.initialize()
            return True
        except Exception as e:
            print(f"✗ connect failure: {e}")
            return False

    async def disconnect(self):
        """Disconnect from server"""
        try:
            if hasattr(self, '_stack'):
                await self._stack.aclose()
            print("✓ already disconnect")
        except Exception as e:
            print(f"✗ disconnect error: {e}")
    def parse_result(self, result):
        if isinstance(result, dict):
            content_list = result.get("content") or []
        else:
            content_list = getattr(result, "content", []) or []
        texts = []
        for item in content_list:
            if isinstance(item, dict):
                if item.get("type") == "text":
                    texts.append(item.get("text") or "")
            else:
                if getattr(item, "type", None) == "text":
                    texts.append(getattr(item, "text", "") or "")
        return "".join(texts)
```

### 2. Phenotype Retrieval Workflow

**Implementation:**

```python
## Initialize client
client = OrigeneClient(
    "https://scp.intern-ai.org.cn/api/v1/mcp/16/Origene-Monarch",
    "<your-api-key>"
)

if not await client.connect():
    print("connection failed")
    exit()

## Retrieve phenotype by HPO ID
result = await client.session.call_tool(
    "get_phenotype_by_HPO_ID",
    arguments={
        "id": "HP:0001250"  # Seizure
    }
)

result_data = client.parse_result(result)
print(result_data)

await client.disconnect()
```

### Tool Descriptions

**Origene-Monarch Server:**
- `get_phenotype_by_HPO_ID`: Retrieve phenotype information
  - Args:
    - `id` (str): HPO ID (e.g., "HP:0001250")
  - Returns: Phenotype description, associated genes, and diseases

### Use Cases

- Clinical diagnosis support
- Genetic disorder characterization
- Phenotype-driven gene discovery
- Rare disease research