# BioCosm (remote · biocosm-mcp.fly.dev)

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

- Trust score: 66/100 (medium)
- Change this week: +3
- Registry status: active
- Liveness: live
- Owner verified: no
- Last scored: 2026-08-03

## Components

- remote · `biocosm-mcp.fly.dev`: 66/100 (this document), [markdown](https://verifymcp.io/servers/nhoverte-biocosm/biocosm-mcp.md), [page](https://verifymcp.io/servers/nhoverte-biocosm/biocosm-mcp)

## Channel facts

- Endpoint: `https://biocosm-mcp.fly.dev/mcp`
- Transports: `streamable-http`
- Auth: `none`
- Version: `1.0.0`

## Trust breakdown

How this component scores in each security and reliability category. Every signal is checked automatically against the live server, and we only credit what we can confirm. Scores are 0–100 per category. Scoring method: https://verifymcp.io/docs/scoring (what has changed: https://verifymcp.io/docs/scoring/changelog)

Scored 2026-08-03.

- **Endpoint Security**: 57/100
  - The endpoint's TLS certificate is valid, in date, and uses a strong key.
  - Authorisation not fully verified: no authorisation is required to call this server, and 13 tool(s) never declared a destructiveHint. The MCP spec treats an absent hint as destructive by default, so we cannot call this surface safe.
  - HTTPS is enforced; there's no plaintext access path.
  - HSTS check failed: the Strict-Transport-Security header is absent.
  - DNSSEC check failed: this domain isn't protected by DNSSEC.
- **Transport & Reachability**: 100/100
  - Verified streamable-http transport via a live MCP handshake.
- **Schema Quality & AI Usability**: 73/100
  - AI-judged instruction clarity (good).
  - Tool/resource definitions use about 1284 tokens (~98/item across 13 items; 13 tools + 0 resources), lean.
  - Usage-examples check failed: none of the tools include examples.
- **Stability & Change Management**: 27/100
  - Stability observed for 8 of 30 days with no destabilising changes; credit accrues until the full window elapses.
- **Tool Coverage**: 100/100
  - 100% of tools have a non-trivial description (not blank, and not just the tool's name).
  - 100% of tool parameters carry a description.
  - Structured output schemas are declared (100% of tools); any adoption earns full credit.
- **Capabilities**: 100/100
  - Implements a supported MCP spec version (2025-11-25); the latest is 2026-07-28.

## Install

### Claude

```bash
claude mcp add --transport http nhoverte-biocosm https://biocosm-mcp.fly.dev/mcp
```

### Codex

```toml
[mcp_servers.nhoverte-biocosm]
url = "https://biocosm-mcp.fly.dev/mcp"
```

### opencode

```json
{
  "$schema": "https://opencode.ai/config.json",
  "mcp": {
    "nhoverte-biocosm": {
      "type": "remote",
      "url": "https://biocosm-mcp.fly.dev/mcp",
      "enabled": true
    }
  }
}
```

### OpenClaw

```bash
openclaw mcp add nhoverte-biocosm --url https://biocosm-mcp.fly.dev/mcp --transport streamable-http
```

### Hermes

```yaml
mcp_servers:
  nhoverte-biocosm:
    url: "https://biocosm-mcp.fly.dev/mcp"
```

### Other

```json
{
  "mcpServers": {
    "nhoverte-biocosm": {
      "type": "http",
      "url": "https://biocosm-mcp.fly.dev/mcp"
    }
  }
}
```

The mcpServers block is a cross-client convention. Remote transports vary, so check your client's docs.

## Changelog

Every change recorded for this component, newest first. Days that predate change tracking, or that we cannot explain, say so: "we were watching and nothing happened" and "we were not watching" are different claims.

### 2026-08-02 (score 66, +1)

No change was recorded against any check on this day. Stability & Change Management went from 20 to 23. That category is still filling its 30-day observation window: 6 days of observed history at the previous scan, 7 at this one. The score rises as the window fills, whether or not the server changes.

### 2026-07-31 (score 65, 0)

- [functional] We updated how we score, so this day's move reflects our rubric, not a change to the server

### 2026-07-29 (score 65, +1)

No change was recorded against any check on this day. Stability & Change Management went from 7 to 10. That category is still filling its 30-day observation window: 2 days of observed history at the previous scan, 3 at this one. The score rises as the window fills, whether or not the server changes.

### 2026-07-28 (score 64, +1)

No change was recorded against any check on this day. Stability & Change Management went from 3 to 7. That category is still filling its 30-day observation window: 1 days of observed history at the previous scan, 2 at this one. The score rises as the window fills, whether or not the server changes.

### 2026-07-27 (score 63, 0)

- [functional] We updated how we score, so this day's move reflects our rubric, not a change to the server

### 2026-07-26 (score 63)

First indexed and scored.

## MCP tools (13)

### `search_nodes` (~146 tokens)

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.

Input parameters:

- `limit` (integer): Maximum results to return (default 20, max 100)
- `query` (string, required): Search term (e.g. "breast cancer", "pembrolizumab", "Merck")

Output parameters:

- `result` (array)

### `get_node` (~145 tokens)

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.

Input parameters:

- `node_id` (string, required): The node identifier (e.g. "pembrolizumab", "trastuzumab")

Output parameters:

- `result`

### `get_writeup` (~55 tokens)

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

Input parameters:

- `node_id` (string, required): The node identifier (e.g. "pembrolizumab")

Output parameters:

- `result`

### `list_by_therapeutic_area` (~62 tokens)

List all nodes in a given therapeutic area.

Input parameters:

- `area` (string, required): Therapeutic area to search (e.g. "breast cancer", "non-small cell lung cancer")
- `limit` (integer): Maximum results (default 50)

Output parameters:

- `result` (array)

### `get_company_portfolio` (~50 tokens)

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

Input parameters:

- `company_name` (string, required): Company name (e.g. "Merck", "Roche", "Illumina")

Output parameters:

- `result`

### `get_stats` (~44 tokens)

Get 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_report` (~48 tokens)

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

Input parameters:

- `limit` (integer): Number of top stale nodes to return (default 20)

### `get_node_freshness` (~56 tokens)

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

Input parameters:

- `node_id` (string, required): The node identifier (e.g. "pembrolizumab")

Output parameters:

- `result`

### `find_by_target` (~66 tokens)

Find all drugs that target a specific gene/protein.

Input parameters:

- `limit` (integer): Maximum results (default 50, max 200)
- `target_gene` (string, required): Gene symbol or target name (e.g. "EGFR", "KRAS", "PD-1")

Output parameters:

- `result` (array)

### `find_by_phase` (~102 tokens)

List drugs/diagnostics at a specific clinical phase.

Input parameters:

- `limit` (integer): Maximum results (default 100, max 500)
- `node_type`: Optional filter — "drug", "pipeline", "diagnostic", "target"
- `phase` (string, required): One of "approved", "on_market", "phase3", "phase2", "phase1",    "in_development", "cleared", "ldt", "ruo"

Output parameters:

- `result` (array)

### `find_related` (~145 tokens)

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

Input parameters:

- `limit` (integer): Maximum results per link type (default 30)
- `link_type`: Optional filter — one of "drug_target", "same_target_class",        "same_company". If None, returns all three groups.
- `node_id` (string, required): Source node identifier

Output parameters:

- `result`

### `get_pos_score` (~68 tokens)

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).

Input parameters:

- `node_id` (string, required): Node identifier

Output parameters:

- `result`

### `get_coverage` (~65 tokens)

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.

## Diagnostics

Captured diagnostic sections: TLS, DNSSEC, Authorisation, Transports. The full working is on the page: https://verifymcp.io/servers/nhoverte-biocosm/biocosm-mcp#diagnostics

## Score history

- 2026-08-03: 66
- 2026-08-02: 66
- 2026-08-01: 65
- 2026-07-31: 65
- 2026-07-30: 65
- 2026-07-29: 65
- 2026-07-28: 64
- 2026-07-27: 63
- 2026-07-26: 63

## Links

- Remote endpoint: https://biocosm-mcp.fly.dev/mcp
- Website: https://biocosm.io/mcp
- Changelog RSS feed: https://verifymcp.io/servers/nhoverte-biocosm/biocosm-mcp/changelog.xml
- Changelog JSON feed: https://verifymcp.io/servers/nhoverte-biocosm/biocosm-mcp/changelog.json
- HTML version of this page: https://verifymcp.io/servers/nhoverte-biocosm/biocosm-mcp