"Full-Stack MEAN CRUD Development" matching MCP servers:

Enables AI agents to search and retrieve compounds, drugs, diseases, pathways, genes, enzymes, glycans, modules, and KO entries; fetch full parsed flat-file entries by ID; and list database contents through keyless REST tools.

Parses MS-DIAL binary lipidomics outputs and runs standard analyses server-side, returning compact summaries so an LLM can drive full lipidomics analysis without exposing raw matrices.

Enables interactive breeding program simulation and comparison via MCP, returning statistical distributions (mean, sd, CI) instead of single stochastic runs.

Enables keyless lookup of marine species and genus names, retrieval of full taxonomic lineages by AphiaID, and common vernacular names across languages via MCP tools.

Provides access to the ClinicalTrials.gov AACT database, enabling analysis of clinical trial data, tracking development trends, and generating therapeutic landscape insights.

Runs the full HyphAeon report and per-pillar analyses in-process, with MEME concordance, over stdio or streamable HTTP.

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.

Enables LLM agents to search biomedical literature, retrieve article details, find related papers, manage caching, and download open-access full texts through MCP with structured, agent-friendly responses.

MCP server and Claude Plugin for a full ENCODE Project genomic data and analysis toolkit — search, download, track, and analyze functional genomics experiments

A bridge connecting AI agents to NCBI's PubMed database through the Model Context Protocol, enabling seamless searching, retrieval, and analysis of biomedical literature and data.

Enables LLM-powered applications to look up bacterial and archaeal taxonomy, search genomes, browse and navigate the taxonomic tree, and compare genomes or find phylogenetic paths between taxa. It works out of the box with a built-in reference dataset covering major phyla and can be pointed at full Genome Taxonomy Database TSV files for comprehensive queries.

Enables AI assistants to search and retrieve prokaryotic names, taxon details, full classifications, and rank-based browsing from the List of Prokaryotic names with Standing in Nomenclature in real time, plus read related information pages.

Enables AI assistants to query and retrieve microbial nomenclature data from the SeqCode Registry through its public REST API. Provides 18 tools for names, genomes, type genomes, register lists, publications, authors, journals, subjects, strains, and full-text search, with pagination and status filtering.

Provides seamless access to UniProtKB protein database, enabling queries for protein entries, sequences, Gene Ontology annotations, full-text search, and ID mapping across 200+ database types.

Enables 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.

Enables AI agents to search public cancer genomics studies (TCGA, CPTAC, MSK, and more), fetch full details for individual studies, resolve gene symbols to Entrez ids, and list cancer types. Works keylessly against open cBioPortal data over a hosted MCP endpoint, a local stdio server, or plain HTTP.

Enables AI agents to resolve genes, diseases, chemicals, variants and species to normalized ids, search ~36M PubMed abstracts and PMC full texts by free text or entity, and retrieve the machine-extracted relations between them with the supporting sentences and PMIDs. Supports auditing individual relations with full evidence passages and pulling per-article entity annotations with character offsets.

MCP 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.

Enables querying and retrieving experimental protein structures from the RCSB Protein Data Bank, including text search, full entry records, polymer entities, ligands, and assemblies.

Enables AI agents to look up approved human genes by official symbol, fuzzy-search symbols, names and aliases, and reverse-map external database identifiers (Entrez, Ensembl, UniProt, OMIM, RefSeq, UCSC) back to canonical gene records with full annotations and cross-references.