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maintenanceEnables users to manage and navigate nf-core bioinformatics pipeline repositories, allowing list, search, and explore operations on pipeline configurations, workflows, and modules.
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"Exploration of the term '.core' and its references" matching MCP servers:
- AlicenseAqualityAmaintenanceGrounds gene-nomenclature work in the HUGO Gene Nomenclature Committee (HGNC) dataset, enabling resolution of gene symbols and IDs to canonical HGNC identifiers, plus cross-references and batch operations.Last updated9MIT
- AlicenseAqualityAmaintenanceEnables AI agents and applications to search, retrieve, and analyze chemical compounds, substances, and bioassays from PubChem's vast chemical information database through comprehensive tools for chemical research and discovery.Last updated101,0209Apache 2.0
- AlicenseAqualityBmaintenanceMCP server that provides tools for querying the Human Phenotype Ontology (HPO) including term lookup, hierarchy exploration, cross-ontology mappings, and gene-phenotype-disease associations, all grounded in a local SQLite database for fast offline lookups.Last updated17MIT
- AlicenseAqualityDmaintenanceEnables AI assistants to query the Ubergraph biomedical ontology SPARQL endpoint with tools for custom SPARQL queries, term lookup, search, and hierarchy traversal.Last updated4MIT
- AlicenseAqualityAmaintenanceA stateless, deterministic Bio-Robotics Core Engine converting biological data (UniProt API) to G-code.Last updated306MIT
- FlicenseBqualityDmaintenanceEnables AI assistants to query genetic variant data, gene constraints, and population genetics information from the gnomAD (Genome Aggregation Database) through its GraphQL API. Supports searching for genes and variants, retrieving constraint scores, analyzing population frequencies, and accessing genomic coverage data.Last updated910
- AlicenseCqualityBmaintenanceA Model Context Protocol server that lets you drive PyMOL with natural language, enabling structure loading, analytical views, measurements, and protein exploration through AI assistants.Last updated10015MIT
Copick MCP Serverofficial
Alicense-qualityCmaintenanceEnables read-only exploration of Copick cryo-ET projects and discovery/validation of copick CLI commands for building processing pipelines.Last updatedMIT- Alicense-qualityCmaintenanceEnables querying and browsing ontologies from the EBI Ontology Lookup Service, including searching for terms, retrieving term details, and navigating ontology hierarchies via natural language.Last updated15MIT
- Alicense-qualityDmaintenanceValidates the physical and chemical plausibility of ligand–protein docking poses using the PoseBusters tool.Last updated5BSD 3-Clause
- Alicense-qualityCmaintenanceEnables AI agents to query the WikiPathways open community pathway database via natural language, part of the Pipeworx MCP gateway.Last updated10MIT
- Alicense-qualityCmaintenanceEnables querying the EBI Expression Atlas for gene expression data across species and conditions. Part of the Pipeworx gateway, it provides access to baseline and differential expression studies.Last updated9MIT
- Alicense-qualityAmaintenanceA unified biomedical graph database that integrates 50+ primary data sources — genes, proteins, compounds, diseases, pathways, and clinical data — into a single queryable graph with billions of cross-reference edges. Its native MCP server gives LLMs direct access to structured, authoritative biomedical data, complementing their reasoning with reliable identifiers and up-to-date database content.Last updated19AGPL 3.0
- Flicense-qualityCmaintenanceEnables querying the CIViC database for clinical interpretations of cancer variants through tools like get_variant_evidence and get_variant_assertions.Last updated1
- Flicense-qualityBmaintenanceEnables resolving genetic variant identifiers (HGVS, dbSNP, ClinVar, gnomAD) to stable ClinGen Allele Registry IDs (CA#) and cross-references, providing a canonical allele identity across genome builds.Last updated
- -license-quality-maintenanceThis server enables multi-agent conversations for interacting with Cirro's biological data platform through its OpenAPI interface, auto-generated using AG2's MCP builder.Last updated
- Flicense-qualityBmaintenanceEnables querying and retrieving cell line records from the Cellosaurus knowledge base via its REST API, including searching, fetching by accession, and accessing release information.Last updated
- Flicense-qualityDmaintenanceEnables search and retrieval of academic papers from PubMed database with advanced features like MeSH term lookup, publication statistics, and PICO-based evidence search.Last updated5
- AlicenseAqualityAmaintenanceEnables querying of per-residue missense tolerance, Pfam domain annotations, and variant counts for human transcripts by wrapping the MetaDome web service. Provides MCP tools for resolving transcripts, requesting tolerance landscapes, and identifying constrained regions.Last updated11MIT
