BioMCP is a server implementation that provides structured access to key biomedical databases through a unified interface. Developed by GenomOncology, it connects to ClinicalTrials.gov, PubMed (via PubTator3), and MyVariant.info to enable searching and retrieving information about clinical trials, research articles, and genetic variants. The server exposes these capabilities as MCP tools that can be used by AI assistants to access up-to-date biomedical data, overcoming knowledge cutoff limitations. BioMCP handles entity normalization, intelligent rendering of complex data as Markdown, and transparent attribution of sources, making it valuable for biomedical research, clinical decision support, and literature review workflows.
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Start analysis with sequential thinking. Parameters: thought (string), thoughtNumber (integer), totalThoughts (integer), nextThoughtNeeded (boolean)
Perform a search query across various biomedical data sources. Parameters: query (string), domain (optional string), genes (optional array), diseases (optional array), conditions (optional array), phase (optional string), significance (optional string), get_schema (optional boolean), explain_query (optional boolean)
Retrieve full details for a single article, trial, or variant. Parameters: domain (string), id (string), detail (optional string)
Search PubMed/PubTator3 and preprints. Parameters: query (string)
Fetch detailed article information. Parameters: id (string)
Search ClinicalTrials.gov or NCI CTS API. Parameters: conditions (array), phase (optional string), source (optional string)
Fetch all trial details from either source. Parameters: id (string)
Fetch protocol information only from ClinicalTrials.gov. Parameters: id (string)
Fetch trial publications from ClinicalTrials.gov. Parameters: id (string)
Fetch outcome measures and results from ClinicalTrials.gov. Parameters: id (string)
Fetch site locations and contacts from ClinicalTrials.gov. Parameters: id (string)
Search MyVariant.info database. Parameters: gene (string), significance (optional string)
Fetch comprehensive variant details. Parameters: id (string)
Search NCI's organization database. Parameters: query (string)
Get organization details by ID. Parameters: id (string)
Search NCI's intervention database (drugs, devices, procedures). Parameters: query (string)
Get intervention details by ID. Parameters: id (string)
Search biomarkers used in trial eligibility criteria. Parameters: query (string)
Search NCI's controlled vocabulary of cancer conditions. Parameters: query (string)
Get real-time gene information from MyGene.info. Parameters: gene_id_or_symbol (string)
Get disease definitions and synonyms from MyDisease.info. Parameters: disease_id_or_name (string)
Get drug/chemical information from MyChem.info. Parameters: drug_id_or_name (string)
