Ensembl MCP Server
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Alternatives to Ensembl MCP Server
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Related Servers
- AlicenseNot gradedqualityBmaintenanceEnables querying Ensembl genomic data including gene lookup, sequence retrieval, homology, variation, and variant effect prediction via MCP tools.24 npmMIT
- AlicenseNot gradedqualityAmaintenanceEnables looking up genes, fetching sequences, predicting variant consequences, finding orthologs, and cross-database xrefs via Ensembl REST API through MCP.120 npm3Apache 2.0
- FlicenseAqualityDmaintenanceA comprehensive Model Context Protocol (MCP) server that provides access to the Ensembl REST API for genomic data, comparative genomics, and biological annotations.193-
- AlicenseAqualityCmaintenanceEnables variant annotation and effect prediction using the Ensembl VEP API, with support for batch and single queries.91MIT
- AlicenseNot gradedqualityCmaintenanceEnables querying UCSC Genome Browser assemblies, annotation tracks, track data over genomic intervals, and raw DNA sequences across ~250 species without authentication.70 npmMIT
- AlicenseAqualityDmaintenanceA Model Context Protocol server providing LLMs with access to the Ensembl genomics database, enabling AI assistants to query gene information, sequences, variants, and other genomic data across multiple species.108JavaScriptMIT
TDQS
Scored across 25 tools
Most tools have distinct purposes, such as get_sequence for sequences and get_homology for homologous genes, but some overlap exists: get_xrefs_by_gene, get_xrefs_by_symbol, and get_xrefs_by_name all handle cross-references with slight variations, which could cause minor confusion. Overall, descriptions clarify boundaries, but the xrefs tools are somewhat redundant.
All tool names follow a consistent verb_noun pattern, primarily using 'get_', 'lookup_', 'map_', 'overlap_', 'search_', and 'vep_' prefixes, with snake_case throughout. This predictability makes it easy for agents to understand and navigate the tool set without naming conflicts.
With 25 tools, the count is borderline high for a genomic data server, feeling slightly heavy but not excessive. It covers various aspects like sequences, variants, and mappings, but could potentially be streamlined by consolidating overlapping tools (e.g., the xrefs group).
The tool set provides comprehensive coverage for genomic and bioinformatics tasks, including data retrieval (e.g., genes, sequences, variants), mapping between coordinates, ontology and taxonomy lookups, and variant prediction with VEP. There are no obvious gaps; it supports full lifecycle operations from search to analysis.