{"apiVersion":"v1","directorySlug":"intree-mcp-12e0d36892","title":"InTree - The Evidence Based Discovery Platform for Biomedica","description":"The map and GPS for biomedical research. InTree turns 240M+ scientific papers into an interactive map of how genes, drugs, diseases, proteins, and pathways connect, with the evidence behind every relationship. Explore, Verify, Trace.","pageUrl":"https://www.mcpbundles.com/skills/intree-mcp-12e0d36892","connectPath":"importable","connectAction":"import_server","catalogListing":false,"bundleSlug":null,"listingKind":"remote_mcp","kind":"provider","transportUrl":"https://mcp.intree.ai/mcp","hostedMcpUrl":null,"toolCount":6,"toolInventoryStatus":"observed","refreshedAt":"2026-11-03T13:26:00.516172+00:00","registryName":"ai.intree/intree-mcp-12e0d36892","registryVersion":"2026.11.3","registryEligible":true,"tools":[{"name":"explore_graph","description":"Map the relationship graph around one or more biomedical entities (drug, gene, protein, disease, pathway, biological process, intervention…). Returns the most important typed, directed relationships (with per-edge paper counts and evidence stage), discovered entities grouped by category, and insights such as novel connections and hypotheses. With 2+ seed entities it also bridges between them. Takes 20–90 s. Use relationship_type to focus (e.g. INHIBITS, TREATS, CAUSES) and focus_categories to pr","inputSchema":{"type":"object","required":["entities"],"properties":{"format":{"type":"string","default":"full"},"entities":{"type":"array","items":{"type":"string"}},"max_entities":{"type":"integer","default":60},"focus_categories":{"anyOf":[{"type":"array","items":{"type":"string"}},{"type":"null"}],"default":null},"relationship_type":{"type":"string","default":""}}},"logicalName":"explore_graph","displayName":"explore_graph","title":"explore_graph","annotations":{"untrustedContentHint":true,"readOnlyHint":true}},{"name":"verify_claim","description":"Verify one specific biomedical claim: does the literature support '<subject> <relationship_type> <object>' (e.g. 'metformin TREATS type 2 diabetes', 'PCSK9 inhibitors REDUCES LDL cholesterol')? Retrieves co-mention sentences from 240M+ papers, classifies each as supporting / contradicting / claimed-only / indirect, and returns a verdict label, counts, study-quality breakdown, publication trend, and quoted sentences with citations. Takes 30–90 s. relationship_type defaults to RELATED_TO (broad as","inputSchema":{"type":"object","required":["subject","object"],"properties":{"format":{"type":"string","default":"full"},"object":{"type":"string"},"subject":{"type":"string"},"relationship_type":{"type":"string","default":"RELATED_TO"}}},"logicalName":"verify_claim","displayName":"verify_claim","title":"verify_claim","annotations":{"untrustedContentHint":true,"readOnlyHint":true}},{"name":"trace_chain","description":"Trace a mechanistic chain through 2+ biomedical entities in order (e.g. ['metformin','AMPK','mTOR','autophagy']) and verify EACH hop against the literature. Returns per-hop verdicts with quoted, cited sentences, effect signs, and the net effect of the whole chain (with a coherence check against direct start→end evidence). Takes 60–180 s. Optional hop_types pins the relationship type per hop (length = entities − 1, 'auto' to let InTree infer one hop). Returns a per-hop markdown summary, an inline","inputSchema":{"type":"object","required":["entities"],"properties":{"format":{"type":"string","default":"full"},"entities":{"type":"array","items":{"type":"string"}},"hop_types":{"anyOf":[{"type":"array","items":{"type":"string"}},{"type":"null"}],"default":null}}},"logicalName":"trace_chain","displayName":"trace_chain","title":"trace_chain","annotations":{"untrustedContentHint":true,"readOnlyHint":true}},{"name":"whoami","description":"Show how this MCP connection is authenticated and how many searches remain: anonymous free tier (per-IP monthly allowance), a signed-in InTree account (shows plan and monthly usage), or a partner key. Free and instant; consumes nothing. Call this when the user asks about limits, sign-in, or billing.","inputSchema":{"type":"object","properties":{}},"logicalName":"whoami","displayName":"whoami","title":"whoami","annotations":{"untrustedContentHint":true,"readOnlyHint":true}},{"name":"suggest_entities","description":"Autocomplete canonical biomedical entity names from InTree's 292K-entity ontology. Fast (<1 s). Use before explore/verify/trace when unsure of the exact term (e.g. 'sglt2' → 'SGLT2 inhibitors'). Returns matching names with categories.","inputSchema":{"type":"object","required":["query"],"properties":{"limit":{"type":"integer","default":10},"query":{"type":"string"}}},"logicalName":"suggest_entities","displayName":"suggest_entities","title":"suggest_entities","annotations":{"untrustedContentHint":true,"readOnlyHint":true}},{"name":"list_relationship_types","description":"List valid relationship types for a pair of entity categories (e.g. subject 'drugs' → object 'diseases': TREATS, CAUSES, PREVENTS…). Fast (<1 s). Useful to pick a specific relationship_type before verify_claim or explore_graph.","inputSchema":{"type":"object","properties":{"object_category":{"type":"string","default":""},"subject_category":{"type":"string","default":""}}},"logicalName":"list_relationship_types","displayName":"list_relationship_types","title":"list_relationship_types","annotations":{"untrustedContentHint":true,"readOnlyHint":true}}],"toolSource":"directory_preview","agentAction":"both","installLinks":[{"id":"cursor","label":"Cursor","href":"cursor://anysphere.cursor-deeplink/mcp/install?name=InTree---The-Evidence-Based-Discovery-Platform-for-Biomedica&config=eyJ1cmwiOiAiaHR0cHM6Ly9tY3AuaW50cmVlLmFpL21jcCJ9"},{"id":"vscode","label":"VS Code","href":"vscode:mcp/install?%7B%22name%22%3A%22InTree---The-Evidence-Based-Discovery-Platform-for-Biomedica%22%2C%22type%22%3A%22http%22%2C%22url%22%3A%22https%3A%2F%2Fmcp.intree.ai%2Fmcp%22%7D"},{"id":"vscode-insiders","label":"VS Code Insiders","href":"vscode-insiders:mcp/install?%7B%22name%22%3A%22InTree---The-Evidence-Based-Discovery-Platform-for-Biomedica%22%2C%22type%22%3A%22http%22%2C%22url%22%3A%22https%3A%2F%2Fmcp.intree.ai%2Fmcp%22%7D"},{"id":"claude-web","label":"Claude.ai","href":"https://claude.ai/customize/connectors?modal=add-custom-connector&connectorName=InTree+-+The+Evidence+Based+Discovery+Platform+for+Biomedica&connectorUrl=https%3A%2F%2Fmcp.intree.ai%2Fmcp"},{"id":"codex","label":"Codex","copyText":"codex mcp add \"InTree---The-Evidence-Based-Discovery-Platform-for-Biomedica\" --url \"https://mcp.intree.ai/mcp\""},{"id":"chatgpt","label":"ChatGPT","href":"https://www.mcpbundles.com/docs/integrations/chatgpt"}],"catalogUrl":"https://www.mcpbundles.com/api/directory/v1/servers/intree-mcp-12e0d36892","callUrl":"https://www.mcpbundles.com/api/directory/v1/servers/intree-mcp-12e0d36892/tools/{tool}","mcpServerUrl":"https://mcp.intree.ai/mcp","liveCatalogUrl":"https://www.mcpbundles.com/api/directory/v1/servers/intree-mcp-12e0d36892?live=1"}