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"How to allow an LLM to ask questions to a user" matching MCP servers:
- AlicenseAqualityCmaintenanceEnables 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).62LGPL 3.0
- AlicenseAqualityCmaintenanceEnables variant annotation and effect prediction using the Ensembl VEP API, with support for batch and single queries.91MIT
- AlicenseAqualityAmaintenanceAn MCP server that provides mouse genetics data from Mouse Genome Informatics (MGI), enabling LLM agents to query markers, mutations, alleles, phenotypes, and disease models.131MIT
- AlicenseAqualityBmaintenanceMCP server that exposes the UniProt REST API to LLM clients, enabling search and retrieval of protein data via tools like search_uniprotkb, get_entry, and map_ids.7MIT
- AlicenseAqualityDmaintenanceEnables AI-driven pharmacogenomic analysis by querying structured genetic variant, drug response, and disease risk data. Supports natural language questions about medications, traits, and health risks based on user genome data, with privacy-first local execution.1645511MIT
- AlicenseAqualityBmaintenanceConverts messy metabolite names into standard database identifiers (KEGG, HMDB, ChEBI, PubChem, InChIKey) and performs crosswalking to Mouse-GEM for metabolic model input, with deterministic tools and an LLM reasoning layer for identity disambiguation.20MIT
- AlicenseBqualityAmaintenanceEnables LLM agents to query the CZ CELLxGENE Census single-cell atlas with ontology-aware filters, cost caps, and full provenance, allowing natural language questions about cell types, tissues, and gene expression.13MIT
- Alicense-qualityDmaintenanceProvides programmatic access to curated SNP data by trait, enabling LLM-powered applications to search, interpret, and discover genetic variants.MIT
- Alicense-qualityBmaintenanceEnables LLM agents to design proteins, predict structures, score interfaces, and run molecular dynamics simulations through a unified interface.1Apache 2.0
- Alicense-qualityCmaintenanceMCP server for querying gene annotations, full-text gene search, and species taxonomy via MyGene.info. Enables AI agents to access gene data through natural language questions.14MIT
- Alicense-qualityCmaintenanceAn MCP server that gives LLM agents access to computational protein design tools.15Apache 2.0
- Alicense-qualityDmaintenanceAn MCP server that enables language models to fetch protein information from the UniProt database, including protein details, sequences, functions, and structures.MIT
- Alicense-qualityCmaintenanceProvides access to EBI's MetaboLights metabolomics study repository via an MCP gateway, enabling querying and retrieval of metabolomics data.7MIT
- Flicense-qualityBmaintenanceA terminal-based bioinformatics CLI chat tool that integrates Ensembl VEP, NCBI ClinVar, an MCP server layer, and OpenRouter's NVIDIA Nemotron 3 Ultra model to provide variant consequence and clinical significance lookups with clear summaries in a Rich-powered CLI.
- Flicense-qualityBmaintenanceAn MCP server for MARRVEL that enables AI agents to access genetics databases and variant analysis tools for rare disease research.19
- AlicenseAqualityCmaintenanceMCP server exposing REINVENT4 generative molecular-design operations as validated, LLM-callable tools for drug discovery, including sampling, transfer learning, reinforcement learning, and molecular analysis.13Apache 2.0
- AlicenseAqualityCmaintenanceProvides direct SQL access to a locally hosted Reactome database, enabling schema discovery, guarded read-only queries, and ergonomic helpers over the full relational schema.9MIT
- AlicenseAqualityDmaintenanceA Model Context Protocol (MCP) server for interacting with Gen3 data commons, with GraphQL query validation to reduce hallucinations.54MIT
- AlicenseAqualityDmaintenanceA Model Context Protocol server that interfaces with Biomart databases, allowing models to discover biological datasets, explore attributes/filters, retrieve biological data, and translate between different biological identifiers.88MIT
