# Ncbi Eutils (npm · @pipeworx/mcp-ncbi-eutils)

NCBI E-utilities MCP — federated Entrez search/fetch.

- Trust score: 82/100 (high trust)
- Change this week: +4
- Registry status: active
- Liveness: live
- Owner verified: no
- Last scored: 2026-11-05

## Components

- remote · `gateway.pipeworx.io`: 77/100, [markdown](https://verifymcp.io/servers/pipeworx-io-ncbi-eutils/ncbi-eutils-mcp.md), [page](https://verifymcp.io/servers/pipeworx-io-ncbi-eutils/ncbi-eutils-mcp)
- npm · `@pipeworx/mcp-ncbi-eutils`: 82/100 (this document), [markdown](https://verifymcp.io/servers/pipeworx-io-ncbi-eutils/pipeworx-mcp-ncbi-eutils.md), [page](https://verifymcp.io/servers/pipeworx-io-ncbi-eutils/pipeworx-mcp-ncbi-eutils)

## Channel facts

- Registry: `npm`
- Package: `@pipeworx/mcp-ncbi-eutils`
- Version: `0.2.1`
- Transport: `stdio`

## Trust breakdown

How this component scores in each security and reliability category. Every signal is checked automatically from public evidence about the published package, including repeated runs of it in an isolated sandbox, 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 2026-11-05.

- **Supply Chain Security**: 100/100
  - No malware found by supply-chain analysis.
  - No known CVEs affecting this package version or its production dependencies.
  - No install/post-install scripts declared.
  - No production dependencies, so there is no dependency health to assess.
- **Provenance & Transparency**: 97/100
  - Source repository is publicly reachable at the declared URL.
  - Cryptographically verified build provenance (signed, bound to pipeworx-io/mcp-ncbi-eutils).
  - Clear OSI-approved license (MIT).
  - Actively maintained (last published 2 days ago).
  - Disclosure check failed: no security disclosure policy was found in the source repository.
- **Schema Quality & AI Usability**: 69/100
  - AI-judged instruction clarity (good).
  - Tool/resource definitions use about 770 tokens (~96/item across 8 items; 8 tools + 0 resources), lean.
  - Usage-examples check failed: none of the tools include examples.
- **Stability & Change Management**: 23/100
  - Stability observed for 7 of 30 days with no destabilising changes; credit accrues until the full window elapses.
- **Tool Coverage**: 83/100
  - 100% of tools have a non-trivial description (not blank, and not just the tool's name).
  - 48% of tool parameters carry a description.
- **Tool Safety**: 100/100
  - No prompt-injection markers were found in the server instructions, tool names or descriptions we captured.
  - We read all 8 captured tool definition(s), and no name or description among them implies an irreversible operation.
  - An AI judge read all 9 captured unit(s) of tool text and found none that tries to manipulate the model reading it.
- **Capabilities**: 100/100
  - Implements a supported MCP spec version (2025-11-25); the latest is 2026-07-28.

## Install

### How do I install the Ncbi Eutils MCP server?

Ncbi Eutils runs locally as an npm package, launched with npx -y @pipeworx/mcp-ncbi-eutils. Ready-made configuration for Claude, Cursor, VS Code, Codex and 5 more is on this page, copied from each client's own documentation.

### Claude

```bash
claude mcp add pipeworx-io-ncbi-eutils -- npx -y @pipeworx/mcp-ncbi-eutils
```

### Cursor

```json
{
  "mcpServers": {
    "pipeworx-io-ncbi-eutils": {
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-ncbi-eutils"
      ]
    }
  }
}
```

### VS Code

```json
{
  "servers": {
    "pipeworx-io-ncbi-eutils": {
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-ncbi-eutils"
      ]
    }
  }
}
```

### Codex

```bash
codex mcp add pipeworx-io-ncbi-eutils -- npx -y @pipeworx/mcp-ncbi-eutils
```

### opencode

```json
{
  "$schema": "https://opencode.ai/config.json",
  "mcp": {
    "pipeworx-io-ncbi-eutils": {
      "type": "local",
      "command": [
        "npx",
        "-y",
        "@pipeworx/mcp-ncbi-eutils"
      ],
      "enabled": true
    }
  }
}
```

### OpenClaw

```bash
openclaw mcp add pipeworx-io-ncbi-eutils --command npx --arg -y --arg @pipeworx/mcp-ncbi-eutils
```

### Hermes

```yaml
mcp_servers:
  pipeworx-io-ncbi-eutils:
    command: "npx"
    args: ["-y", "@pipeworx/mcp-ncbi-eutils"]
```

### Netclaw

```json
{
  "McpServers": {
    "pipeworx-io-ncbi-eutils": {
      "Transport": "stdio",
      "Command": "npx",
      "Arguments": [
        "-y",
        "@pipeworx/mcp-ncbi-eutils"
      ]
    }
  }
}
```

### Vellum

```bash
assistant mcp add pipeworx-io-ncbi-eutils -t stdio -c npx -a -y @pipeworx/mcp-ncbi-eutils
```

### Other

```json
{
  "mcpServers": {
    "pipeworx-io-ncbi-eutils": {
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-ncbi-eutils"
      ]
    }
  }
}
```

## 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.

### 2026-11-05 (score 82, +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.

### 2026-11-04 (score 81, +15)

- [security improvement] Malware scan: unverified → pass

### 2026-11-03 (score 66, −14)

- [security regression] Malware scan: pass → unverified
- [functional] Package version: 0.2.0 → 0.2.1

### 2026-11-01 (score 80, +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.

### 2026-10-30 (score 79, +1)

No change was recorded against any check on this day. Stability & Change Management went from 0 to 3. That category is still filling its 30-day observation window: 0 days of observed history at the previous scan, 1 at this one. The score rises as the window fills, whether or not the server changes.

### 2026-10-29 (score 78)

First indexed and scored.

## MCP tools (8)

### `einfo` (~66 tokens)

List all available Entrez databases (omit db) or return field definitions and link names for a specific database (e.g. db=pubmed). Use before esearch to discover valid search fields and databases.

Input parameters:

- `db` (string): Optional db name; omit for global db list.

### `esearch` (~121 tokens)

Search an Entrez database (e.g. pubmed, gene, nucleotide) by query term and return a list of matching UIDs (up to 10,000) with hit count. Supports pagination via retstart and sort (e.g. pub_date).

Input parameters:

- `db` (string, required)
- `retmax` (number): 1-10000 (default 20)
- `retstart` (number)
- `sort` (string): e.g. "pub_date" (PubMed), "relevance"
- `term` (string, required)

### `esummary` (~68 tokens)

Fetch document summaries for one or more Entrez UIDs in a given database (e.g. pubmed), returning title, authors, journal, and publication date without the full record body.

Input parameters:

- `db` (string, required)
- `ids` (array, required)
- `retstart` (number)

### `efetch` (~80 tokens)

Full records. Returns text (XML/GenBank/FASTA/…) per rettype.

Input parameters:

- `db` (string, required)
- `ids` (array, required)
- `retmode` (string): text (default) | xml | json
- `rettype` (string): e.g. "abstract", "fasta", "gb", "xml"

### `elink` (~54 tokens)

Links across databases.

Input parameters:

- `dbfrom` (string, required)
- `dbto` (string, required)
- `ids` (array, required)
- `linkname` (string): Specific link, e.g. "pubmed_protein"

### `egquery` (~23 tokens)

Global query across all Entrez databases.

Input parameters:

- `term` (string, required)

### `geo_series` (~123 tokens)

Look up an NCBI GEO (Gene Expression Omnibus) series by its GSE accession, e.g. GSE75310 -> title, organism, number of samples and their GSM ids, platform (GPL id and name), experiment type (expression profiling by array / high-throughput sequencing, methylation, ChIP-seq...), release date, summary, PubMed ids, BioProject and SRA study links. Use for any question naming a GSE expression series.

Input parameters:

- `accession` (string, required): GEO series accession, e.g. "GSE75310"

### `geo_search` (~178 tokens)

Search NCBI GEO (Gene Expression Omnibus) for expression series (GSE) by keywords, optionally filtered by organism and experiment type. Returns the matching series with title, organism, sample count, platform, type and release date, plus the total hit count. Follow up with geo_series for one accession.

Input parameters:

- `limit` (number): 1-50 (default 10)
- `organism` (string): Scientific name, e.g. "Homo sapiens", "Mus musculus"
- `query` (string, required): Free-text terms, e.g. "dyskeratosis congenita" or "telomere RNA-seq"
- `type` (string): GEO experiment type, e.g. "Expression profiling by array", "Expression profiling by high throughput sequencing", "Methylation profiling by genome tiling array"

## Diagnostics

Captured diagnostic sections: Provenance, Dependencies. The full working is on the page: https://verifymcp.io/servers/pipeworx-io-ncbi-eutils/pipeworx-mcp-ncbi-eutils#diagnostics

## Score history

- 2026-11-05: 82
- 2026-11-04: 81
- 2026-11-03: 66
- 2026-11-02: 80
- 2026-11-01: 80
- 2026-10-31: 79
- 2026-10-30: 79
- 2026-10-29: 78

## Common questions

### What is the Ncbi Eutils MCP server?

Ncbi Eutils is an MCP server listed in the public MCP registry as io.github.pipeworx-io/ncbi-eutils. NCBI E-utilities MCP, federated Entrez search/fetch. This page covers its npm package (@pipeworx/mcp-ncbi-eutils).

### Is the Ncbi Eutils MCP server safe to use?

Ncbi Eutils scores 82 out of 100 on VerifyMCP. We found no known CVEs affecting it as of 5 November 2026. It declares no install or post-install scripts. Its build provenance is signed and verified. That is a record of what we were able to check automatically, not an endorsement. The category breakdown on this page shows every signal behind the number, including the ones we could not confirm.

### What tools does the Ncbi Eutils MCP server expose?

Ncbi Eutils exposes 8 tools: einfo, esearch, esummary, efetch, elink, and 3 more. Their descriptions and schemas cost roughly 713 tokens of context every time the server is loaded.

### Is the Ncbi Eutils MCP server still maintained?

Ncbi Eutils is still listed as active in the MCP registry. We last reached this channel on 5 November 2026. Those dates come from our own scans of the registry and the channel itself, not from anything the publisher announced.

### What licence is the Ncbi Eutils MCP server under?

Ncbi Eutils declares the MIT licence, which is OSI-approved. That covers the source only, and says nothing about the cost of any service it calls.

## Links

- npm package: https://www.npmjs.com/package/@pipeworx/mcp-ncbi-eutils
- Socket report: https://socket.dev/npm/package/@pipeworx/mcp-ncbi-eutils
- Repository: https://github.com/pipeworx-io/mcp-ncbi-eutils
- Website: https://pipeworx.io/packs/ncbi-eutils
- Changelog RSS feed: https://verifymcp.io/servers/pipeworx-io-ncbi-eutils/pipeworx-mcp-ncbi-eutils.xml
- Changelog JSON feed: https://verifymcp.io/servers/pipeworx-io-ncbi-eutils/pipeworx-mcp-ncbi-eutils.json
- HTML version of this page: https://verifymcp.io/servers/pipeworx-io-ncbi-eutils/pipeworx-mcp-ncbi-eutils