# Claidex MCP MCP server

Biomedical failure intelligence platform for terminated trials and translational analysis.

## Links
- Registry page: https://www.getdrio.com/mcp/com-claidex-failure-intelligence
- Repository: https://github.com/ssatanis/claidex-sentinel
- Website: https://claidex.com

## Install
- Command: `npx -y @claidex-mcp/claidex-mcp`
- Endpoint: https://app.claidex.com/api/mcp
- Auth: Auth required by registry metadata

## Setup notes
- Remote header: Authorization (required; secret)
- Package: Npm @claidex-mcp/claidex-mcp v1.0.0
- Environment variable: CLAIDEX_MCP_URL (default https://app.claidex.com/api/mcp)
- Environment variable: CLAIDEX_MCP_API_KEY (required; secret)
- The upstream registry signals required auth or secrets.
- Remote endpoint: https://app.claidex.com/api/mcp
- Header: Authorization

## Tools
- claidex_capabilities (Claidex MCP Capabilities) - Return the Claidex MCP feature map, configured storage/model providers, safety controls, resources, prompts, and tool counts. Endpoint: https://app.claidex.com/api/mcp
- claidex_claim_risk_matrix (Claidex Claim Risk Matrix) - Search claims and summarize MRS bands, trial phases, failure archetypes, and high-risk programs for rapid diligence. Endpoint: https://app.claidex.com/api/mcp
- claidex_health_snapshot (Claidex Health Snapshot) - Return Sentinel metrics, coverage, graph counts, recent automation runs, MRS bands, and preprint-watch summaries. Endpoint: https://app.claidex.com/api/mcp
- claidex_research_prompt (Claidex Research Prompt) - Compose a rigorous, reusable investigation prompt that tells an MCP client which Claidex tools and resources to use. Endpoint: https://app.claidex.com/api/mcp
- claidex_tool_catalog (Claidex Tool Catalog) - Return the complete MCP tool catalog, optionally including full input schemas and filtering native versus agent-backed tools. Endpoint: https://app.claidex.com/api/mcp
- consult_specialist_model (Consult Specialist Model) - Ask a specialist Gateway model for code, database/tool-calling, statistics, literature, preprint, or mechanistic synthesis support. Use for hard subproblems, second opinions, code generation/review, or complex synthesis. Endpoint: https://app.claidex.com/api/mcp
- fetch (Fetch Claidex Result) - Fetch a specific result returned by search. This compatibility tool supports OpenAI and ChatGPT remote MCP retrieval flows. Endpoint: https://app.claidex.com/api/mcp
- fetch_research_url (Fetch Research Url) - Fetch a public HTTPS research URL, JSON API response, package metadata endpoint, documentation page, or dataset preview. Blocks private/internal hosts and truncates large responses. Endpoint: https://app.claidex.com/api/mcp
- get_claim_content (Get Claim Content) - Retrieve the complete text content of a specific Claidex Claim by its slug. Use this when you need to read the full post-mortem analysis, including hypothesis, failure mechanism, and prevention analysis. Endpoint: https://app.claidex.com/api/mcp
- query_chembl (Query Chembl) - Look up a drug or compound in ChEMBL. Returns mechanism of action, primary target, ChEMBL ID, max development phase, molecular type, and synonyms. Endpoint: https://app.claidex.com/api/mcp
- query_clinicaltrials (Query Clinicaltrials) - Search ClinicalTrials.gov for clinical trials. Can search by drug name, condition, target, or NCT ID. Returns trial status, phase, sponsor, primary endpoints, and why_stopped if terminated. Endpoint: https://app.claidex.com/api/mcp
- query_failure_graph (Query Failure Graph) - Query the Claidex failure graph for a specific gene target. Returns the Mechanism Risk Score (MRS), failure counts by phase and archetype, and all related claim slugs. Endpoint: https://app.claidex.com/api/mcp
- query_openfda (Query Openfda) - Query the FDA FAERS database for adverse event signals for a drug. Returns top adverse event terms, serious case count, and death count. Endpoint: https://app.claidex.com/api/mcp
- query_opentargets (Query Opentargets) - Query Open Targets for target-disease association evidence. Returns genetic evidence score, clinical evidence, known drugs, tractability, and safety liabilities for a gene-disease pair. Endpoint: https://app.claidex.com/api/mcp
- query_package_registry (Query Package Registry) - Look up package metadata from npm or PyPI before recommending code, analysis packages, API clients, or dataset tooling. Endpoint: https://app.claidex.com/api/mcp
- rank_documents_by_embedding (Rank Documents By Embedding) - Embed a query and candidate documents, then rank documents by cosine similarity. Use for semantic matching, retrieval checks, clustering triage, and lightweight RAG over user-provided passages. Endpoint: https://app.claidex.com/api/mcp
- rerank_documents (Rerank Documents) - Rerank candidate documents/passages against a query using a dedicated reranking model. Use after retrieval/search when exact relevance ordering matters. Endpoint: https://app.claidex.com/api/mcp
- run_computation (Run Computation) - Evaluate deterministic mathematical expressions with optional variables. Use for algebra, matrices, vectors, transformations, descriptive numerical checks, and reproducible calculations. Does not execute arbitrary JavaScript or install packages. Endpoint: https://app.claidex.com/api/mcp
- run_statistical_analysis (Run Statistical Analysis) - Run a statistical analysis computation. Supports: Wilson confidence intervals, binomial proportions, phase transition success rates, power calculations, Bayesian posterior estimates, descriptive statistics, and two-proportion comparisons. Returns computed values, interpretation, and LaTeX formula. Endpoint: https://app.claidex.com/api/mcp
- search (Search Claidex) - Search Claidex failure claims and preprint flags. This compatibility tool returns citation-ready results for OpenAI and ChatGPT remote MCP flows. Endpoint: https://app.claidex.com/api/mcp
- search_claims (Search Claims) - Search the Claidex failure database for post-mortems matching a drug name, gene target, disease, failure archetype, or sponsor. Returns matching claims with title, slug, drug, target, disease, phase, failure archetype, Open Targets score, and MRS score. Endpoint: https://app.claidex.com/api/mcp
- search_preprint_flags (Search Preprint Flags) - Search the Claidex Preprint Watch database for bioRxiv preprints flagged as contradicting the clinical failure record. Search by target gene, disease, or preprint title. Endpoint: https://app.claidex.com/api/mcp
- search_pubmed (Search Pubmed) - Search PubMed for biomedical literature. Returns title, authors, journal, year, DOI, abstract, and PMID for each result. Endpoint: https://app.claidex.com/api/mcp
- web_search (Web Search) - Search the web for recent news, investor commentary, analyst notes, press releases, and conference coverage about drugs, clinical trials, or biomedical mechanisms. Endpoint: https://app.claidex.com/api/mcp

## Resources
- claidex://capabilities - Claidex MCP Capabilities Feature, safety, storage, model, resource, prompt, and tool inventory. MIME type: application/json
- claidex://metrics - Sentinel Metrics Database, graph, coverage, automation, MRS, and preprint-watch metrics. MIME type: application/json
- claidex://tools - Tool Catalog Complete MCP tool catalog with schemas. MIME type: application/json
- claidex://prompts - Prompt Catalog Reusable investigation prompts exposed by this server. MIME type: application/json
- claidex://security - Security Model Authentication, validation, network, and sensitive-data handling notes. MIME type: application/json

## Prompts
- failure-postmortem - Failure Post-Mortem Investigate a failed biomedical program with Claidex claims, graph context, and citations. Arguments: query, depth
- target-risk-dossier - Target Risk Dossier Build a target-level risk dossier using MRS, graph edges, Open Targets, and failure archetypes. Arguments: target_gene, disease
- preprint-signal-audit - Preprint Signal Audit Audit a preprint or early signal for contradiction risk, reproducibility gaps, and trial relevance. Arguments: query, severity_floor
- phase-transition-analysis - Phase Transition Analysis Run statistical checks for phase transition, base-rate, and failure-rate claims. Arguments: context, comparison
- package-risk-scan - Package Risk Scan Assess an npm or PyPI package before adding it to a biomedical data pipeline. Arguments: package_name, ecosystem

## Metadata
- Owner: com.claidex
- Version: 1.0.0
- Runtime: Npm
- Transports: STDIO, HTTP
- License: Not captured
- Language: Not captured
- Stars: Not captured
- Updated: May 24, 2026
- Source: https://registry.modelcontextprotocol.io