Tooluniverse

io.github.mims-harvard/tooluniverse · v1.5.9

2,700+ scientific tools for AI scientists: life science, research, literature, and more.

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Connect Runs on your machine

Terminal

claude mcp add tooluniverse -e OPENAI_API_KEY=<OPENAI_API_KEY> -e ANTHROPIC_API_KEY=<ANTHROPIC_API_KEY> -e GEMINI_API_KEY=<GEMINI_API_KEY> -e OPENROUTER_API_KEY=<OPENROUTER_API_KEY> -e AZURE_OPENAI_API_KEY=<AZURE_OPENAI_API_KEY> -e HF_TOKEN=<HF_TOKEN> -e NCBI_API_KEY=<NCBI_API_KEY> -e SEMANTIC_SCHOLAR_API_KEY=<SEMANTIC_SCHOLAR_API_KEY> -e BIOGRID_API_KEY=<BIOGRID_API_KEY> -e DISGENET_API_KEY=<DISGENET_API_KEY> -e OMIM_API_KEY=<OMIM_API_KEY> -e ONCOKB_API_TOKEN=<ONCOKB_API_TOKEN> -e NVIDIA_API_KEY=<NVIDIA_API_KEY> -e USPTO_API_KEY=<USPTO_API_KEY> -e UMLS_API_KEY=<UMLS_API_KEY> -e BRENDA_EMAIL=<BRENDA_EMAIL> -e BRENDA_PASSWORD=<BRENDA_PASSWORD> -- uvx tooluniverse==1.5.9

claude_desktop_config.json

{
  "mcpServers": {
    "tooluniverse": {
      "command": "uvx",
      "args": [
        "tooluniverse==1.5.9"
      ],
      "env": {
        "OPENAI_API_KEY": "<OPENAI_API_KEY>",
        "ANTHROPIC_API_KEY": "<ANTHROPIC_API_KEY>",
        "GEMINI_API_KEY": "<GEMINI_API_KEY>",
        "OPENROUTER_API_KEY": "<OPENROUTER_API_KEY>",
        "AZURE_OPENAI_API_KEY": "<AZURE_OPENAI_API_KEY>",
        "HF_TOKEN": "<HF_TOKEN>",
        "NCBI_API_KEY": "<NCBI_API_KEY>",
        "SEMANTIC_SCHOLAR_API_KEY": "<SEMANTIC_SCHOLAR_API_KEY>",
        "BIOGRID_API_KEY": "<BIOGRID_API_KEY>",
        "DISGENET_API_KEY": "<DISGENET_API_KEY>",
        "OMIM_API_KEY": "<OMIM_API_KEY>",
        "ONCOKB_API_TOKEN": "<ONCOKB_API_TOKEN>",
        "NVIDIA_API_KEY": "<NVIDIA_API_KEY>",
        "USPTO_API_KEY": "<USPTO_API_KEY>",
        "UMLS_API_KEY": "<UMLS_API_KEY>",
        "BRENDA_EMAIL": "<BRENDA_EMAIL>",
        "BRENDA_PASSWORD": "<BRENDA_PASSWORD>"
      }
    }
  }
}

~/.cursor/mcp.json

{
  "mcpServers": {
    "tooluniverse": {
      "command": "uvx",
      "args": [
        "tooluniverse==1.5.9"
      ],
      "env": {
        "OPENAI_API_KEY": "<OPENAI_API_KEY>",
        "ANTHROPIC_API_KEY": "<ANTHROPIC_API_KEY>",
        "GEMINI_API_KEY": "<GEMINI_API_KEY>",
        "OPENROUTER_API_KEY": "<OPENROUTER_API_KEY>",
        "AZURE_OPENAI_API_KEY": "<AZURE_OPENAI_API_KEY>",
        "HF_TOKEN": "<HF_TOKEN>",
        "NCBI_API_KEY": "<NCBI_API_KEY>",
        "SEMANTIC_SCHOLAR_API_KEY": "<SEMANTIC_SCHOLAR_API_KEY>",
        "BIOGRID_API_KEY": "<BIOGRID_API_KEY>",
        "DISGENET_API_KEY": "<DISGENET_API_KEY>",
        "OMIM_API_KEY": "<OMIM_API_KEY>",
        "ONCOKB_API_TOKEN": "<ONCOKB_API_TOKEN>",
        "NVIDIA_API_KEY": "<NVIDIA_API_KEY>",
        "USPTO_API_KEY": "<USPTO_API_KEY>",
        "UMLS_API_KEY": "<UMLS_API_KEY>",
        "BRENDA_EMAIL": "<BRENDA_EMAIL>",
        "BRENDA_PASSWORD": "<BRENDA_PASSWORD>"
      }
    }
  }
}

.vscode/mcp.json

{
  "servers": {
    "tooluniverse": {
      "type": "stdio",
      "command": "uvx",
      "args": [
        "tooluniverse==1.5.9"
      ],
      "env": {
        "OPENAI_API_KEY": "<OPENAI_API_KEY>",
        "ANTHROPIC_API_KEY": "<ANTHROPIC_API_KEY>",
        "GEMINI_API_KEY": "<GEMINI_API_KEY>",
        "OPENROUTER_API_KEY": "<OPENROUTER_API_KEY>",
        "AZURE_OPENAI_API_KEY": "<AZURE_OPENAI_API_KEY>",
        "HF_TOKEN": "<HF_TOKEN>",
        "NCBI_API_KEY": "<NCBI_API_KEY>",
        "SEMANTIC_SCHOLAR_API_KEY": "<SEMANTIC_SCHOLAR_API_KEY>",
        "BIOGRID_API_KEY": "<BIOGRID_API_KEY>",
        "DISGENET_API_KEY": "<DISGENET_API_KEY>",
        "OMIM_API_KEY": "<OMIM_API_KEY>",
        "ONCOKB_API_TOKEN": "<ONCOKB_API_TOKEN>",
        "NVIDIA_API_KEY": "<NVIDIA_API_KEY>",
        "USPTO_API_KEY": "<USPTO_API_KEY>",
        "UMLS_API_KEY": "<UMLS_API_KEY>",
        "BRENDA_EMAIL": "<BRENDA_EMAIL>",
        "BRENDA_PASSWORD": "<BRENDA_PASSWORD>"
      }
    }
  }
}

Replace the values in angle brackets with your own. Keys stay on your machine; we never see them.

Tools

This server runs locally, so its tools are listed by your MCP client once it starts.

Environment variables

Name	Description
`OPENAI_API_KEY` Optional, secret	OpenAI API key for LLM-based tool finding and embedding features
`ANTHROPIC_API_KEY` Optional, secret	Anthropic API key for Claude-based features
`GEMINI_API_KEY` Optional, secret	Google Gemini API key for Gemini-based features
`OPENROUTER_API_KEY` Optional, secret	OpenRouter API key for accessing 100+ LLM models
`AZURE_OPENAI_API_KEY` Optional, secret	Azure OpenAI API key (alternative to OpenAI)
`HF_TOKEN` Optional, secret	HuggingFace token for accessing models and datasets
`NCBI_API_KEY` Optional, secret	NCBI/PubMed API key for higher rate limits (10 req/sec vs 3 req/sec). Register at https://www.ncbi.nlm.nih.gov/account/
`SEMANTIC_SCHOLAR_API_KEY` Optional, secret	Semantic Scholar API key for higher rate limits (100 req/sec vs 1 req/sec). Register at https://www.semanticscholar.org/product/api
`BIOGRID_API_KEY` Optional, secret	BioGRID API key for protein-protein interaction queries. Register free at https://webservice.thebiogrid.org/
`DISGENET_API_KEY` Optional, secret	DisGeNET API key for gene-disease association data. Register free at https://www.disgenet.org/
`OMIM_API_KEY` Optional, secret	OMIM API key for Mendelian disease data. Register at https://omim.org/api
`ONCOKB_API_TOKEN` Optional, secret	OncoKB API token for precision oncology annotations. Register at https://www.oncokb.org/apiAccess
`NVIDIA_API_KEY` Optional, secret	NVIDIA NIM API key for AlphaFold2 structure prediction, molecular docking, and genomics tools. Get key at https://build.nvidia.com
`USPTO_API_KEY` Optional, secret	USPTO API key for patent data access. Register at https://developer.uspto.gov/
`UMLS_API_KEY` Optional, secret	UMLS API key for medical terminology and concept mapping. Register at https://uts.nlm.nih.gov/uts/
`BRENDA_EMAIL` Optional	BRENDA enzyme database login email. Register at https://www.brenda-enzymes.org/
`BRENDA_PASSWORD` Optional, secret	BRENDA enzyme database login password

Details

Package	`[email protected]` (PYPI, stdio)
First published	5 Nov 2026
Last updated	5 Nov 2026
Registry name	`io.github.mims-harvard/tooluniverse`

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Installed and run on your own machine, so there is no public endpoint to check.

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