{"server":{"$schema":"https://static.modelcontextprotocol.io/schemas/2025-12-11/server.schema.json","name":"io.github.mims-harvard/tooluniverse","description":"2,500+ scientific tools for AI scientists: life science, research, literature, and more.","repository":{"url":"https://github.com/mims-harvard/ToolUniverse","source":"github"},"version":"1.4.1","websiteUrl":"https://aiscientist.tools","packages":[{"registryType":"pypi","registryBaseUrl":"https://pypi.org","identifier":"tooluniverse","version":"1.4.1","runtimeHint":"uvx","transport":{"type":"stdio"},"packageArguments":[{"value":"tooluniverse-smcp-stdio","type":"positional"},{"description":"Compact mode enabled by default: only exposes 4 core tools (tool finder, tool executor, etc.) to prevent context window overflow. All 2,500+ tools remain accessible via the execute_tool function.","value":"--compact-mode","type":"positional"},{"description":"Specific tool categories to load (e.g., uniprot ChEMBL opentarget pubmed). Omit to load all tools. See full list: https://zitniklab.hms.harvard.edu/ToolUniverse/tools/tools_config_index.html","type":"named","name":"--categories","valueHint":"CATEGORY","isRepeated":true}],"environmentVariables":[{"description":"OpenAI API key for LLM-based tool finding and embedding features","isSecret":true,"name":"OPENAI_API_KEY"},{"description":"Anthropic API key for Claude-based features","isSecret":true,"name":"ANTHROPIC_API_KEY"},{"description":"Google Gemini API key for Gemini-based features","isSecret":true,"name":"GEMINI_API_KEY"},{"description":"OpenRouter API key for accessing 100+ LLM models","isSecret":true,"name":"OPENROUTER_API_KEY"},{"description":"Azure OpenAI API key (alternative to OpenAI)","isSecret":true,"name":"AZURE_OPENAI_API_KEY"},{"description":"HuggingFace token for accessing models and datasets","isSecret":true,"name":"HF_TOKEN"},{"description":"NCBI/PubMed API key for higher rate limits (10 req/sec vs 3 req/sec). Register at https://www.ncbi.nlm.nih.gov/account/","isSecret":true,"name":"NCBI_API_KEY"},{"description":"Semantic Scholar API key for higher rate limits (100 req/sec vs 1 req/sec). Register at https://www.semanticscholar.org/product/api","isSecret":true,"name":"SEMANTIC_SCHOLAR_API_KEY"},{"description":"BioGRID API key for protein-protein interaction queries. Register free at https://webservice.thebiogrid.org/","isSecret":true,"name":"BIOGRID_API_KEY"},{"description":"DisGeNET API key for gene-disease association data. Register free at https://www.disgenet.org/","isSecret":true,"name":"DISGENET_API_KEY"},{"description":"OMIM API key for Mendelian disease data. Register at https://omim.org/api","isSecret":true,"name":"OMIM_API_KEY"},{"description":"OncoKB API token for precision oncology annotations. Register at https://www.oncokb.org/apiAccess","isSecret":true,"name":"ONCOKB_API_TOKEN"},{"description":"NVIDIA NIM API key for AlphaFold2 structure prediction, molecular docking, and genomics tools. Get key at https://build.nvidia.com","isSecret":true,"name":"NVIDIA_API_KEY"},{"description":"USPTO API key for patent data access. Register at https://developer.uspto.gov/","isSecret":true,"name":"USPTO_API_KEY"},{"description":"UMLS API key for medical terminology and concept mapping. Register at https://uts.nlm.nih.gov/uts/","isSecret":true,"name":"UMLS_API_KEY"},{"description":"BRENDA enzyme database login email. Register at https://www.brenda-enzymes.org/","name":"BRENDA_EMAIL"},{"description":"BRENDA enzyme database login password","isSecret":true,"name":"BRENDA_PASSWORD"}]}],"_meta":{}},"_meta":{"io.modelcontextprotocol.registry/official":{"status":"active","statusChangedAt":"2026-08-12T15:26:49.876362Z","publishedAt":"2026-08-12T15:26:49.876362Z","updatedAt":"2026-08-12T15:26:49.876362Z","isLatest":true}}}
