{"$schema":"https://wellknown.network/schemas/agent-record-v1.json","schemaVersion":"1","id":"ag_jkzd49cvx3cu","handle":"propaths-mcp","url":"https://wellknown.network/agents/propaths-mcp","links":{"self":"https://wellknown.network/agents/propaths-mcp/record.json","html":"https://wellknown.network/agents/propaths-mcp","markdown":"https://wellknown.network/agents/propaths-mcp/record.md","api":"https://wellknown.network/api/v1/agents/propaths-mcp","status":"https://wellknown.network/api/v1/agents/propaths-mcp/status","claim":"https://wellknown.network/agents/propaths-mcp/claim","claimApi":"https://wellknown.network/api/v1/claims","claimDescriptor":"https://wellknown.network/agents/propaths-mcp/claim.json","badge":"https://wellknown.network/agents/propaths-mcp/badge.svg","openapi":"https://wellknown.network/openapi.json","history":"https://wellknown.network/api/v1/agents/propaths-mcp/history","tools":"https://wellknown.network/api/v1/agents/propaths-mcp/tools"},"ard":{"identifier":"urn:air::server:propaths-mcp","type":"application/mcp-server-card+json"},"kind":"mcp_server","declared":{"name":"propaths-mcp","summary":"MCP server for the ProPaths verified protein-interactome API.","description":"# propaths-mcp\n\nAn [MCP](https://modelcontextprotocol.io) server that exposes the **ProPaths**\nverified protein-interactome as read-only tools for AI agents. It is a thin\nclient over the public ProPaths API (`https://www.propaths.net`), so every tool\nreturns exactly the API's JSON. No account, no API key.\n\nProPaths reads a protein's primary literature and returns a verified graph of\n**typed, directed, mechanistic** interactions plus a pathway ontology. One\nprotein (ATXN3) is fully mapped today.\n\n## Quickstart (Claude Desktop / any MCP client)\n\nAdd this to your MCP client config. `uvx` fetches and runs the server; nothing\nto clone or install.\n\n```json\n{\n  \"mcpServers\": {\n    \"propaths\": {\n      \"command\": \"uvx\",\n      \"args\": [\"propaths-mcp\"]\n    }\n  }\n}\n```\n\nThen ask, e.g., *\"search ProPaths for SCA3 and summarize its strongest\nmechanistic interaction.\"* The agent will call `search_proteins` then\n`get_protein`, and drill in with `get_interaction`.\n\nPrefer the raw API? It is public and keyless:\n\n```bash\ncurl https://www.propaths.net/api/protein/ATXN3\ncurl 'https://www.propaths.net/api/search?q=SCA3'\n```\n\n## Tools\n\n| Tool | What it does |\n|------|--------------|\n| `search_proteins(q, limit=20)` | Find a protein by symbol, alias, or name (start here) |\n| `get_protein(symbol)` | Compact interactome overview (the main entry point) |\n| `get_interaction(interaction_id, query=None)` | One interaction's full mechanism + evidence |\n| `get_interaction_between(a, b)` | The interaction(s) between two proteins, in one call |\n| `list_interactions(symbol, kind=, type=, pathway=, min_evidence=, sort=, limit=)` | Filtered/sorted headline rows |\n| `list_interaction_types()` | The controlled vocabulary (edge kinds, types, directions) + counts |\n| `get_pathway(pathway_id)` | A pathway node with its lineage and member interactions |\n| `get_pathway_tree()` | The full pathway scaffold (resolves pathway ids to names) |\n| `get_highlights()` | The best-evidenced interactions |\n| `export_netw…","publisher":{"name":"ProPaths","url":null},"homepage":"https://www.propaths.net/documentation","repository":"https://github.com/Tahsin-Kazi/propaths-mcp","version":"0.1.1","license":null,"protocols":["mcp"],"tags":["bioinformatics","interactome","mcp","propaths","protein"],"pricing":null,"endpoints":[{"url":"pypi:propaths-mcp","type":"package_pypi","auth":null,"probeable":false}],"skills":null,"tools":null,"extra":null,"attribution":{"kind":"pypi","name":"pypi","repoUrl":"pypi","summary":"pypi","version":"pypi","description":"pypi","homepageUrl":"pypi","publisherName":"pypi"}},"derived":{"capabilities":[{"slug":"knowledge.knowledge-graph","name":"Knowledge Graphs","confidence":0.791,"provenance":"derived"}],"categories":["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":"propaths-mcp","registry":"pypi","observedAt":"2026-10-28T20:23:02.227Z","publishedAt":"2026-08-26T16:55:28.651825Z","latestVersion":"0.1.1"},"toolSurface":null,"endpointFacts":[]},"verification":{"claimed":false,"claimedAt":null,"proofs":[]},"provenance":{"sources":[{"source":"pypi","key":"propaths-mcp","url":"https://pypi.org/project/propaths-mcp/","firstSeenAt":"2026-09-10T10:24:07.403Z","fetchedAt":"2026-10-28T20:21:27.188Z","normalizedAt":"2026-10-28T20:21:27.188Z"}]},"firstSeenAt":"2026-09-10T10:24:07.403Z","updatedAt":"2026-10-28T20:23:02.227Z"}