BioCosm

Official13 tools

by nhoverte

Biotech intelligence for AI agents: drugs, targets, diagnostics, PoS estimates, and writeups.

Biotech intelligence on drugs, targets, diagnostics, and market opportunity estimates.

Captured live from the server via tools/list.

search_nodes

Search BioCosm nodes by name, gene symbol, target, therapeutic area, or company. Results are ranked: exact name/brand matches first, then partial name matches, with a node-type prior (canonical drug/diagnostic nodes rank above gene-target nodes, which rank above ChEMBL salt-form duplicates). Nodes matched only via description/company/area rank last. Each result includes a `name` field for disambiguation.

Parameters (2)

querystringrequired
Search term (e.g. "breast cancer", "pembrolizumab", "Merck")
limitinteger
Maximum results to return (default 20, max 100)

get_node

Get full details for a single BioCosm node: identity and all name aliases, classification, gene targets and mechanism, therapeutic areas, companies, revenue history where available (sparse: ~100 drugs, mostly blockbusters, as annualized quarterly estimates; source links when present), probability-of- success predictions for pipeline drugs (with confidence intervals and contributing factors), structured clinical trial outcomes, external cross-references, and writeup availability. Empty fields mean "not in BioCosm's coverage," NOT zero or absent in reality.

Parameters (1)

node_idstringrequired
The node identifier (e.g. "pembrolizumab", "trastuzumab")

get_writeup

Get the full writeup for a BioCosm node, including all sections, citations, structured data, and validation score.

Parameters (1)

node_idstringrequired
The node identifier (e.g. "pembrolizumab")

list_by_therapeutic_area

List all nodes in a given therapeutic area.

Parameters (2)

areastringrequired
Therapeutic area to search (e.g. "breast cancer", "non-small cell lung cancer")
limitinteger
Maximum results (default 50)

get_company_portfolio

Get a company's full drug/diagnostic portfolio from BioCosm.

Parameters (1)

company_namestringrequired
Company name (e.g. "Merck", "Roche", "Illumina")

get_stats

Get a high-level overview of the BioCosm database: total nodes, writeups, companies, breakdowns by type/status/domain, validation scores, and recent pipeline runs.

No parameters.

get_staleness_report

Get writeup staleness report: overall stats, top stale nodes, data source freshness.

Parameters (1)

limitinteger
Number of top stale nodes to return (default 20)

get_node_freshness

Get freshness details for a single node: writeup age, enrichment hash match, staleness score, validation score.

Parameters (1)

node_idstringrequired
The node identifier (e.g. "pembrolizumab")

find_by_target

Find all drugs that target a specific gene/protein.

Parameters (2)

target_genestringrequired
Gene symbol or target name (e.g. "EGFR", "KRAS", "PD-1")
limitinteger
Maximum results (default 50, max 200)

find_by_phase

List drugs/diagnostics at a specific clinical phase.

Parameters (3)

phasestringrequired
One of "approved", "on_market", "phase3", "phase2", "phase1", "in_development", "cleared", "ldt", "ruo"
node_typeany
Optional filter — "drug", "pipeline", "diagnostic", "target"
limitinteger
Maximum results (default 100, max 500)

find_related

Find nodes connected to a given node. Three relationship types are derived on-the-fly: - "drug_target": for a drug, the targets it hits (and vice versa for a target node, the drugs that hit it) - "same_company": drugs sharing a company with this node - "same_target_class": drugs with the same mechanism_class

Parameters (3)

node_idstringrequired
Source node identifier
link_typeany
Optional filter — one of "drug_target", "same_target_class", "same_company". If None, returns all three groups.
limitinteger
Maximum results per link type (default 30)

get_pos_score

Get the Probability of Success estimate for a node, including the base rate, adjustment factors with reasoning, confidence interval, and model version. Returns None for nodes without a PoS score (typically only late-stage pipeline drugs are scored).

Parameters (1)

node_idstringrequired
Node identifier

get_coverage

Report BioCosm's actual data coverage so you never mistake missing data for a real-world zero. An empty or absent field on a node means "not in BioCosm's data," never a true zero. BioCosm is AI-generated and may contain errors.

No parameters.

Install

Remote endpoint

Streamable HTTP

Hosted server - connect over the network, no local install.

url

https://biocosm-mcp.fly.dev/mcp

Add to VS Code Add to Cursor

claude_desktop_config.json

json

{
  "mcpServers": {
    "biocosm": {
      "command": "npx",
      "args": [
        "-y",
        "mcp-remote",
        "https://biocosm-mcp.fly.dev/mcp"
      ]
    }
  }
}

Desktop config is stdio-only; this bridges via mcp-remote. Native remote: Settings > Connectors.