{"$schema":"https://wellknown.network/schemas/agent-record-v1.json","schemaVersion":"1","id":"ag_p5238mygyrwd","handle":"igvf-catalog-mcp","url":"https://wellknown.network/agents/igvf-catalog-mcp","links":{"self":"https://wellknown.network/agents/igvf-catalog-mcp/record.json","html":"https://wellknown.network/agents/igvf-catalog-mcp","markdown":"https://wellknown.network/agents/igvf-catalog-mcp/record.md","api":"https://wellknown.network/api/v1/agents/igvf-catalog-mcp","status":"https://wellknown.network/api/v1/agents/igvf-catalog-mcp/status","claim":"https://wellknown.network/agents/igvf-catalog-mcp/claim","claimApi":"https://wellknown.network/api/v1/claims","claimDescriptor":"https://wellknown.network/agents/igvf-catalog-mcp/claim.json","badge":"https://wellknown.network/agents/igvf-catalog-mcp/badge.svg","openapi":"https://wellknown.network/openapi.json","history":"https://wellknown.network/api/v1/agents/igvf-catalog-mcp/history","tools":"https://wellknown.network/api/v1/agents/igvf-catalog-mcp/tools"},"ard":{"identifier":"urn:air::server:igvf-catalog-mcp","type":"application/mcp-server-card+json"},"kind":"mcp_server","declared":{"name":"igvf-catalog-mcp","summary":"MCP server for IGVF Catalog genomics knowledge graph","description":"# IGVF Catalog MCP Server\n\nAn MCP (Model Context Protocol) server providing LLM-friendly access to the IGVF Catalog genomics knowledge graph.\n\n## Features\n\n- **Smart Entity Lookup**: Auto-detects entity type from ID patterns (genes, variants, proteins, etc.)\n- **Genomic Region Search**: Flexible region format parsing with multi-entity queries\n- **Relationship Discovery**: Find eQTLs, GWAS associations, protein interactions, and more\n- **ID Translation**: Convert between variant ID formats (rsID, SPDI, HGVS, etc.)\n- **Data Source Discovery**: Dynamically discover available datasets and filters\n\n## Installation\n\nThe server is published on PyPI as [`igvf-catalog-mcp`](https://pypi.org/project/igvf-catalog-mcp/). Run it without installing anything using [uv](https://docs.astral.sh/uv/):\n\n```bash\nuvx igvf-catalog-mcp\n```\n\nor install it with pip and run the `igvf-catalog-mcp` command:\n\n```bash\npip install igvf-catalog-mcp\nigvf-catalog-mcp\n```\n\nTo use it from an MCP client such as Claude Desktop or Claude Code, register it as a stdio server:\n\n```json\n{\n  \"mcpServers\": {\n    \"igvf-catalog\": {\n      \"command\": \"uvx\",\n      \"args\": [\"igvf-catalog-mcp\"]\n    }\n  }\n}\n```\n\n## Usage\n\nConfigure the API URL (optional):\n\n```bash\nexport IGVF_CATALOG_API_URL=https://api.catalogkg.igvf.org  # default\n# or for development:\nexport IGVF_CATALOG_API_URL=https://catalog-api-dev.demo.igvf.org\nexport IGVF_CATALOG_API_URL=http://localhost:2023\n```\n\n`/api` is appended to the URL if it is not already there.\n\n## Tools\n\n### 1. `igvf_catalog_get_entity`\nLook up any entity by ID with automatic type detection.\n\n```json\n{\"id\": \"BRCA1\"}\n{\"id\": \"rs12345\"}\n{\"id\": \"ENSG00000141510\"}\n{\"id\": \"lupus\", \"hint\": \"disease\", \"limit\": 50, \"page\": 1}\n```\n\n### 2. `igvf_catalog_search_region`\nFind all entities within a genomic region.\n\n```json\n{\"region\": \"chr17:41000000-42000000\"}\n```\n\n### 3. `igvf_catalog_find_associations`\nDiscover relationships between entities.\n\n```json\n{\"entity_id\": \"TP53\", \"relationship\": \"regu…","publisher":{"name":"IGVF DACC","url":null},"homepage":"https://github.com/IGVF-DACC/igvf-catalog-mcp","repository":"https://github.com/IGVF-DACC/igvf-catalog-mcp","version":"1.3.0","license":"MIT","protocols":["mcp"],"tags":["mcp"],"pricing":null,"endpoints":[{"url":"pypi:igvf-catalog-mcp","type":"package_pypi","auth":null,"probeable":false}],"skills":null,"tools":null,"extra":null,"attribution":{"kind":"pypi","name":"pypi","license":"pypi","repoUrl":"pypi","summary":"pypi","version":"pypi","description":"pypi","homepageUrl":"pypi","publisherName":"pypi"}},"derived":{"capabilities":[{"slug":"commerce.ecommerce","name":"E-commerce Operations","confidence":1,"provenance":"derived"},{"slug":"knowledge.knowledge-graph","name":"Knowledge Graphs","confidence":1,"provenance":"derived"}],"categories":["commerce","knowledge"],"language":"en"},"observed":{"status":"unknown","statusReason":"Distributed as a package to run locally; no network endpoint to check.","lastOkAt":null,"lastProbedAt":null,"statusComputedAt":null,"reliability30d":null,"latestObservations":[],"tools":null,"package":{"name":"igvf-catalog-mcp","registry":"pypi","observedAt":"2026-11-05T21:26:44.511Z","publishedAt":"2026-10-15T17:24:43.937902Z","latestVersion":"1.3.0"},"toolSurface":null,"endpointFacts":[]},"verification":{"claimed":false,"claimedAt":null,"proofs":[]},"provenance":{"sources":[{"source":"pypi","key":"igvf-catalog-mcp","url":"https://pypi.org/project/igvf-catalog-mcp/","firstSeenAt":"2026-10-18T16:29:04.227Z","fetchedAt":"2026-11-05T21:25:50.076Z","normalizedAt":"2026-11-05T21:25:50.076Z"}]},"firstSeenAt":"2026-10-18T16:29:04.227Z","updatedAt":"2026-11-05T21:26:44.511Z"}