"Convert a PDF into a Graph DB Representation for Decision Trees" matching MCP servers:

Provides direct SQL access to a locally hosted Reactome database, enabling schema discovery, guarded read-only queries, and ergonomic helpers over the full relational schema.

MCP server to batch download open-access PDFs from PubMed Central (PMC), supporting PMCID/PMID lookup, parallel downloads, and download reports.

Builds and manages a cardiology-focused knowledge graph in Neo4j by extracting medical entities and relationships from documents using LLMs. It enables users to ingest PDFs, refine extracted data, and perform natural language queries to gain clinical insights.

Enables genomic sequence analysis through the Evo 2 model, supporting DNA sequence scoring, embedding, generation, and variant effect prediction with multiple model checkpoints (7B, 40B, 1B parameters).

Enables variant annotation and effect prediction using the Ensembl VEP API, with support for batch and single queries.

An open source biomedical research agent that provides LLMs with 28 tools for drug discovery, protein analysis, literature search, medical imaging, omics, and sandbox execution, all running locally via Ollama and MedGemma.

Enables LLMs and AI agents to search a biomedical knowledge graph for concepts and study variables, traverse semantic relationships, and look up BioData Catalyst PIC-SURE paths for cohort building.

Enables LLMs and AI agents to query a biomedical knowledge graph stored in RedisGraph, with tools for concept search, synonym enrichment, and study variable discovery through semantic relationships.

Enables graph-based fraud propagation scoring for clinical diagnostics, diffusing risk across entities with a deterministic fallback when the ML model is unavailable.

Enables scenario-based clinical communication practice through MCP tools for discovering scenarios, starting sessions, sending practitioner turns, and receiving evidence-linked evaluation feedback.

Integrates AlphaFold DB and eight other biomedical data sources into MCP tools for variant clinical reporting, disease-target analysis, structural intelligence, and drug repurposing, with results persisted to a local SQLite knowledge graph.

Exposes four CMS public datasets as callable tools in Claude conversations, enabling natural-language real-world evidence analytics without SQL expertise.

Enables Alexa+ users to coordinate household pet care by logging feeding, medication, activity, litter, and health observations for dogs and cats, with evidence-grounded triage, Q&A, and daily briefings backed by a verified veterinary library and citations.

This server enables interacting with the National Digital Health Mission's Health Information User (HIU) API, allowing agents to access and manage health information through the Multi-Agent Conversation Protocol.

An MCP server that lets an LLM answer a pharmacist's question about drug shortages by normalizing drug names, finding pharmacologic alternatives, and checking their shortage status using public FDA and NLM data.

Enables MCP-compatible clients to act as an AI receptionist for a small medical clinic, handling appointment booking and rescheduling, patient registration, intake, reminders, and FAQ answers.

Enables language models to search biomedical literature, fetch sequences, and follow links across Entrez databases through eleven read-only tools wrapping the nine NCBI Entrez E-utilities. It handles URL building, pacing, redirects, response caps, and API-key redaction so queries can be answered without a browser or scraping.

Verified ICD-10-CM code lookup & validation for AI agents — official descriptions, not guesses.

Enables AI assistants to clean PDB structures and run initial-stage energy relaxation for biomolecular modeling. It provides a structured workflow for preparing structures before production molecular dynamics or coarse-graining pipelines.

TransBench is a translational research agent that takes free-text clinical observations, decomposes them into biological axes, generates falsifiable hypotheses grounded in PubMed evidence, and designs reproducible computational experiments with concrete datasets for Claude Science.