BioContextAI Knowledgebase MCP

Instructions

Implementation Reference

• src/biocontext_kb/core/antibodyregistry/_get_antibody_information.py:9-43 (handler)

  The core handler function for the 'bc_get_antibody_information' tool (prefixed by 'BC' server name). Fetches detailed antibody information from the Antibody Registry API given an antibody ID.
  @core_mcp.tool() def get_antibody_information( ab_id: Annotated[str, Field(description="Antibody Registry ID (e.g., '3643095')")], ) -> dict: """Get detailed antibody information by ID. Retrieves catalog number, vendor, clonality, epitope, applications, and more. Returns: dict: Antibody details including abId, catalog numbers, vendor, clonality, epitope, applications, target species, isotype, citations or error message. """ ab_id = ab_id.strip() if not ab_id: return {"error": "Antibody ID cannot be empty."} url = f"https://www.antibodyregistry.org/api/antibodies/{ab_id}" headers = {"accept": "application/json"} try: response = requests.get(url, headers=headers) response.raise_for_status() result = response.json() # API returns an array of antibodies if isinstance(result, list): if len(result) > 0: # Return the first item from the array return result[0] else: return {"error": f"No data found for antibody ID: {ab_id}"} else: return {"error": "Unexpected result format from Antibody Registry query."} except requests.exceptions.RequestException as e: return {"error": f"Failed to fetch antibody information from Antibody Registry: {e!s}"}
• src/biocontext_kb/core/__init__.py:6-6 (registration)

  Star import from antibodyregistry module, which imports and registers the get_antibody_information tool via its @core_mcp.tool() decorator.
  from .biorxiv import *
• src/biocontext_kb/core/antibodyregistry/__init__.py:1-2 (registration)

  Imports the handler function into the package namespace to enable registration when imported from core/__init__.py
  from ._get_antibody_information import get_antibody_information from ._get_antibody_list import get_antibody_list
• src/biocontext_kb/core/_server.py:1-7 (helper)

  Defines the core_mcp FastMCP instance with name 'BC', which prefixes all registered tools with 'bc_' (e.g., bc_get_antibody_information).
  from fastmcp import FastMCP core_mcp = FastMCP( # type: ignore "BC", instructions="Provides access to biomedical knowledge bases.", )