Access critical biomedical databases with structured queries. Enhance your LLM's capabilities by integrating with PubMed, ClinicalTrials.gov, and MyVariant.info for comprehensive biomedical insights.
Tools
article_details
Retrieves details for a single PubMed article given its PubMed ID (PMID). Input: A single PMID (e.g., 34397683) Process: Calls the PubTator3 API to fetch the article's title, abstract, and full text (if available). Output: A Markdown formatted string containing the retrieved article content.
article_searcher
Searches PubMed articles using structured criteria. Input: A `PubmedRequest` object containing lists for `genes`, `variants`, `diseases`, `chemicals`, and `keywords`. Use full terms ("Non-small cell lung carcinoma") over abbreviations ("NSCLC"). Use keywords to specify terms that don't fit in disease, gene ("EGFR"), chemical ("Cisplatin"), or variant ("BRAF V600E"). Process: Resolves entities then queries PubTator3's search API. Output: A Markdown formatted list summarizing matching articles (PMID, title, abstract, etc.). Limited to max 40 results.
trial_protocol
Retrieves core protocol information for a single clinical trial identified by its NCT ID. Input: A single NCT ID (string, e.g., "NCT04280705"). Process: Fetches standard "Protocol" view modules (like ID, Status, Sponsor, Design, Eligibility) from the ClinicalTrials.gov v2 API. Output: A Markdown formatted string detailing title, status, sponsor, purpose, study design, phase, interventions, eligibility criteria, etc. Returns error if invalid.
trial_locations
Retrieves contact and location details for a single clinical trial identified by its NCT ID. Input: A single NCT ID (string, e.g., "NCT04280705"). Process: Fetches the `ContactsLocationsModule` from the ClinicalTrials.gov v2 API for the given NCT ID. Output: A Markdown formatted string detailing facility names, addresses (city, state, country), and contact info. Returns an error message if the NCT ID is invalid.