BioCosm

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

CommunityOnlineNo sign-inGlobalFreeCan modify data

What it can do

    What data it sees

    Do you need an account

    No: the server works without sign-in

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

    How to connect

    How to connect BioCosm to Claude

    The server address to paste into Claude settings:

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

    1. Open Claude (claude.ai or the desktop app).
    2. Go to Settings → Connectors.
    3. Click Add custom connector.
    4. Paste the server address copied below into Remote MCP server URL and click Add.
    5. In a chat, click + → Connectors and switch the new connector on.

    Custom connectors are available on Free, Pro, Max, Team and Enterprise plans (Free is limited to one). On Team and Enterprise an organization Owner adds the connector first under Organization settings → Connectors.

    Authorization

    After you click Add, a sign-in window for the service opens. Sign in with your own account and approve access. Claude never sees your password.

    How to connect BioCosm to ChatGPT

    The server address to paste into ChatGPT settings:

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

    1. Open ChatGPT in a browser (chatgpt.com). A Plus, Pro, Business, Enterprise or Edu plan is required.
    2. Turn on developer mode once: Settings → Apps → Advanced settings → Developer mode.
    3. Open Settings → Connectors and click Create.
    4. Fill in the form: Name (anything), Description (one line about what the service does), MCP server URL (copy it below).
    5. Under Authentication choose OAuth if the service requires sign-in, otherwise None. Click Create.
    6. In a new chat open + → Apps/Connectors and enable the connector.

    OpenAI has renamed this section before (Connectors → Apps/Plugins). If the label differs, search settings for "developer mode". On Business/Enterprise workspaces an admin must allow custom connectors first.

    Authorization

    On first use ChatGPT opens the service's sign-in window. Sign in and approve access.

    How to connect BioCosm to Cursor

    The server address to paste into Cursor settings:

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

    Fastest: click Open in Cursor below and confirm the prompt.

    Manually:

    1. In Cursor open Settings → Cursor Settings → MCP and click Add new global MCP server.
    2. Paste the JSON copied below into ~/.cursor/mcp.json (per project: .cursor/mcp.json in the repo root).
    3. Save the file. The server appears in the MCP list; authorize it there if asked.

    Authorization

    If the service needs sign-in, an authorize button appears next to the server in the MCP list.

    Server tool list (13)

    Raw names from tools/list. Only developers need these.

    search_nodesSearch 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.
    get_nodeGet 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.
    get_writeupGet the full writeup for a BioCosm node, including all sections, citations, structured data, and validation score.
    list_by_therapeutic_areaList all nodes in a given therapeutic area.
    get_company_portfolioGet a company's full drug/diagnostic portfolio from BioCosm.
    get_statsGet a high-level overview of the BioCosm database: total nodes, writeups, companies, breakdowns by type/status/domain, validation scores, and recent pipeline runs.
    get_staleness_reportGet writeup staleness report: overall stats, top stale nodes, data source freshness.
    get_node_freshnessGet freshness details for a single node: writeup age, enrichment hash match, staleness score, validation score.
    find_by_targetFind all drugs that target a specific gene/protein.
    find_by_phaseList drugs/diagnostics at a specific clinical phase.
    find_relatedFind 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
    get_pos_scoreGet 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).
    get_coverageReport 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.