BioMCP TS vs Opentargets
A side-by-side look at the BioMCP TS and Opentargets MCP servers: transport, auth, tools, quality signals, and the config to install either one in Claude, Cursor, Windsurf or VS Code.
Verdict: choose BioMCP TS for biology & bioinformatics work as a local process; choose Opentargets for biology & bioinformatics as a local process. You can also run both side by side in one mcpServers block.
Which MCP server should you choose?
Choose BioMCP TS when
- You need dedicated capabilities in the Biology & Bioinformatics domain.
- You prefer a local stdio subprocess transport.
- You want tools like
gene_search, gene_get, gene_diseases.
Choose Opentargets when
- You need dedicated capabilities in the Biology & Bioinformatics domain.
- You prefer a local stdio subprocess transport.
- Its auth model fits you: No auth required.
- You have the keys it needs:
MCP_TRANSPORT, FASTMCP_SERVER_HOST, FASTMCP_SERVER_PORT, OPEN_TARGETS_API_URL, OPEN_TARGETS_RATE_LIMIT_RPS, OPEN_TARGETS_RATE_LIMIT_BURST, OPEN_TARGETS_RATE_LIMIT_ENABLED. - You want tools like
get_target_alternative_genes, get_target_associated_diseases, get_target_chemical_probes.
Feature & specification comparison
Rows where the two servers differ are marked.
| Spec | ||
|---|---|---|
| Category | Biology & Bioinformatics | Biology & Bioinformatics |
| Quality signal | 59/100 · Good | 61/100 · Good |
| Install command | Confirmed | Confirmed |
| Transport | Local subprocess (stdio) | Local subprocess (stdio) |
| Auth | Not declared | No auth required |
| Pricing | Not declared | Free |
| Required env vars | None listed | MCP_TRANSPORTFASTMCP_SERVER_HOSTFASTMCP_SERVER_PORTOPEN_TARGETS_API_URLOPEN_TARGETS_RATE_LIMIT_RPSOPEN_TARGETS_RATE_LIMIT_BURSTOPEN_TARGETS_RATE_LIMIT_ENABLED |
| Verified owner | Community listing | Community listing |
| GitHub stars | 12 | 19 |
| Directory activity | 1 views 0 installs 0 upvotes | 3 views 0 installs 0 upvotes |
| Tools | 53 | 68 |
| Full listing | View BioMCP TS | View Opentargets |
Tools & capabilities
BioMCP TS tools 53
gene_searchSearch genes by symbol, name, or keyword with chromosome filtergene_getGet detailed gene info by HGNC symbol with optional sections (core, pathways, protein, ontology, go, interactions, expression, protein_atlas, constraint, druggability, dosage_sensitivity, clinical_evidence, disease_associations, diseases, funding). Set `smart=true` to auto-resolve gene aliases (e.g…gene_diseasesGet diseases associated with a gene (DisGeNET / OpenTargets)gene_drugsFind drugs targeting a gene (OpenTargets)gene_trialsFind clinical trials for a genegene_articlesFind articles about a gene (federated across PubMed, EuropePMC, Semantic Scholar, arXiv, PubTator, LitSense; envelope `{ results, warnings?, errors? }` — per-backend failures ride in `errors`)gene_enrichPathway enrichment analysis for a gene list (Reactome)variant_searchSearch variants by rsid, HGVS, gene, ClinVar significance, frequency, CADDvariant_getGet detailed variant info with optional sections (frequency, predictions, clinical; `alphagenome_scores` currently returns an unavailability error pending reimplementation)variant_oncokbGet OncoKB cancer variant annotations (requires `ONCOKB_TOKEN`)variant_trialsFind clinical trials for a variantdrug_searchSearch drugs by name, mechanism, or keyword (envelope `{ results, hint? }` — when nothing matches, `hint` points mechanism/target queries at gene_drugs)- +41 more on the listing page
Opentargets tools 68
get_target_alternative_genesList alternate gene symbols and database cross-references for a target.get_target_associated_diseasesList diseases linked to a target with association scores.get_target_chemical_probesList available chemical probes and their quality metrics.get_target_classReturn ChEMBL target class annotations for a gene.get_target_depmap_essentialityFetch DepMap CRISPR essentiality scores across cell lines.get_target_expressionReturn baseline expression measurements for a target across biosamples.get_target_genetic_constraintFetch genetic constraint metrics (gnomAD) for a target.get_target_hallmarksReturn cancer hallmark annotations associated with a target.get_target_homologuesRetrieve cross-species homologues for a target gene.get_target_infoRetrieve core identity details for a target gene.get_target_interactionsRetrieve protein interaction partners for a target from curated databases.get_target_known_drugsReturn compounds with known activity on the target.- +56 more on the listing page
Ready-to-paste client configs
Paste either block (or both) into your client config, e.g. claude_desktop_config.json or ~/.cursor/mcp.json. We only show a config when the install command is confirmed.
BioMCP TS
{
"mcpServers": {
"biomcp-ts": {
"command": "npx",
"args": [
"-y",
"biomcp"
]
}
}
}
Opentargets
{
"mcpServers": {
"opentargets": {
"command": "uvx",
"args": [
"--from",
"git+https://github.com/nickzren/opentargets-mcp",
"opentargets-mcp"
],
"env": {
"MCP_TRANSPORT": "YOUR_MCP_TRANSPORT_HERE",
"FASTMCP_SERVER_HOST": "YOUR_FASTMCP_SERVER_HOST_HERE",
"FASTMCP_SERVER_PORT": "YOUR_FASTMCP_SERVER_PORT_HERE",
"OPEN_TARGETS_API_URL": "YOUR_OPEN_TARGETS_API_URL_HERE",
"OPEN_TARGETS_RATE_LIMIT_RPS": "YOUR_OPEN_TARGETS_RATE_LIMIT_RPS_HERE",
"OPEN_TARGETS_RATE_LIMIT_BURST": "YOUR_OPEN_TARGETS_RATE_LIMIT_BURST_HERE",
"OPEN_TARGETS_RATE_LIMIT_ENABLED": "YOUR_OPEN_TARGETS_RATE_LIMIT_ENABLED_HERE"
}
}
}
}
Frequently asked questions
BioMCP TS is categorized under Biology & Bioinformatics and uses a local stdio subprocess. Opentargets belongs to Biology & Bioinformatics and uses a local stdio subprocess. Pick BioMCP TS for biology & bioinformatics work and Opentargets for biology & bioinformatics.
Copy the mcpServers block from the config section on this page into your client's config (for example claude_desktop_config.json or ~/.cursor/mcp.json), then fully restart the client.
BioMCP TS has no declared pricing — check the project's own site. Opentargets is listed as free. Auth: no auth required. If a server needs environment variables such as API keys, define them under the env key in your client's MCP config.
Yes. MCP clients support multiple servers: add biomcp-ts and opentargets as separate keys in the same mcpServers object, and your assistant will call tools from either one.
On AllMCPs, BioMCP TS has a quality signal of 59/100 (Good) with 1 views, 0 installs and 12 GitHub stars. Opentargets has 61/100 (Good) with 3 views, 0 installs and 19 GitHub stars.