AGR MCP Server

MCP server for querying Alliance of Genome Resources - genomics data across model organisms.

Installation

$3

No installation required. Add to your MCP client config:

``json
{
"mcpServers": {
"agr-genomics": {
"command": "npx",
"args": ["-y", "agr-mcp-server"]
}
}
}
`

$3

`bash
npm install -g agr-mcp-server
`

Then use in your config:

`json
{
"mcpServers": {
"agr-genomics": {
"command": "agr-mcp-server"
}
}
}
`

$3

| Client | Config path |
|--------|-------------|
| Claude Desktop (macOS) | ~/Library/Application Support/Claude/claude_desktop_config.json |
| Claude Desktop (Windows) | %APPDATA%\Claude\claude_desktop_config.json |
| Claude Code | ~/.claude/settings.json |
| Cursor | Settings > MCP Servers |
| Windsurf | ~/.codeium/windsurf/mcp_config.json |

Usage

Ask questions naturally:

- "Search for BRCA1 genes in human"
- "What genes are involved in DNA repair?"
- "Get information about HGNC:1100"
- "Find orthologs of insulin gene"
- "What diseases are associated with TP53?"
- "Show me expression data for daf-2 in worm"

$3

Human, mouse, rat, zebrafish, fly, worm, yeast, xenopus

Tools

| Tool | Description |
|------|-------------|
| search_genes | Search genes with optional species filter |
| get_gene_info | Detailed gene information (symbol, location, synonyms) |
| get_gene_diseases | Disease associations for a gene |
| search_diseases | Search diseases by name |
| get_gene_expression | Expression data across tissues/stages |
| find_orthologs | Cross-species homologs |
| get_gene_phenotypes | Phenotype annotations |
| get_gene_interactions | Molecular and genetic interactions |
| get_gene_alleles | Alleles/variants for a gene |
| search_alleles | Search alleles by name |
| get_species_list | List supported model organisms |

Gene ID Formats

| Species | Format | Example |
|---------|--------|---------|
| Human | HGNC:* | HGNC:1100 |
| Mouse | MGI:* | MGI:95892 |
| Rat | RGD:* | RGD:3889 |
| Zebrafish | ZFIN:ZDB-GENE-* | ZFIN:ZDB-GENE-990415-72 |
| Fly | FB:FBgn* | FB:FBgn0000017 |
| Worm | WB:WBGene* | WB:WBGene00000898 |
| Yeast | SGD:S* | SGD:S000002536 |
| Xenopus | Xenbase:XB-GENE-* | Xenbase:XB-GENE-485905` |

Data Sources

- Alliance of Genome Resources API
- AllianceMine

License

MIT