What is the key difference between Wikipathways and Reactome?

Wikipathways belongs to the Databases category with cloud HTTP/SSE execution, while Reactome belongs to the Databases category with cloud HTTP/SSE execution.

How do I install Wikipathways or Reactome in Claude Desktop or Cursor?

Copy the mcpServers JSON configuration snippet provided on this page into your claude_desktop_config.json or ~/.cursor/mcp.json file and restart your AI client.

Are Wikipathways and Reactome free or paid?

Wikipathways operates under a Free / Open Source model (No auth required). Reactome operates under a Free / Open Source model (No auth required).

Which MCP server has more tools and community activity?

Wikipathways lists 0 tools with 0 views and 0 GitHub stars. Reactome lists 0 tools with 0 views and 0 GitHub stars.

Can I use both Wikipathways and Reactome together in the same MCP host?

Yes! MCP hosts like Claude Desktop, Cursor, Windsurf, Cline, and VS Code support configuring multiple servers under the mcpServers object simultaneously.

Side-by-Side Model Context Protocol Comparison

Wikipathways vs Reactome

In-depth architectural comparison of the Wikipathways and Reactome MCP servers. Compare execution transports, security boundaries, tool capabilities, quality scores, and ready-to-paste client installation snippets for Claude, Cursor, Windsurf, and VS Code.

At a Glance & Executive Verdict

Wikipathways

Databases · Remote HTTP/SSE

Quality: 33/100 (Emerging) | Auth: No auth required

Reactome

Databases · Remote HTTP/SSE

Quality: 37/100 (Fair) | Auth: No auth required

Verdict Summary: Choose Wikipathways if you need specialized Databases tools running via a hosted cloud SSE transport. Choose Reactome if your workspace requires Databases integration with remote web transport. Both servers can be configured concurrently in your client's mcpServers manifest.

Which MCP Server Should You Choose?

Choose Wikipathways when:

You need dedicated capabilities in the Databases domain.
You prefer remote streaming HTTP/SSE transport architecture.
Your security boundary fits: No auth required (Free / Open Source).

Explore Wikipathways Details

Choose Reactome when:

You need dedicated capabilities in the Databases domain.
You prefer remote streaming HTTP/SSE transport architecture.
Your security boundary fits: No auth required (Free / Open Source).

Explore Reactome Details

Feature & Specification Comparison

Specification	Wikipathways Databases	R Reactome Databases
Summary	WikiPathways MCP — open community pathway database.	Reactome biological pathway database
Category & Scope	Databases	Databases
Quality signal

Tools & Capabilities Breakdown

Wikipathways Tools (0)

No explicit tool names declared in metadata yet. Check project README on main listing page.

Reactome Tools (0)

No explicit tool names declared in metadata yet. Check project README on main listing page.

Ready-to-Paste Client Configurations

Paste either (or both) of these JSON server blocks into your client config file (e.g. claude_desktop_config.json or ~/.cursor/mcp.json).

Wikipathways Configuration

mcpServers (Claude Desktop / Cursor)

{
  "mcpServers": {
    "wikipathways": {
      "url": "https://pipeworx.io"
    }
  }
}

Reactome Configuration

mcpServers (Claude Desktop / Cursor)

{
  "mcpServers": {
    "reactome": {
      "url": "https://reactome.org"
    }
  }
}

Frequently Asked Questions

Wikipathways is categorized under Databases and uses a remote streaming HTTP/SSE transport. In contrast, Reactome belongs to Databases using remote streaming HTTP/SSE transport. Select Wikipathways when you need capabilities focused on databases and Reactome when you require tools for databases.

More alternatives to Wikipathways More alternatives to Reactome Databases category hub Canonical compare URL