PubMed Research
Integrates with PubMed's biomedical literature database to search academic papers, retrieve detailed metadata and abstracts, generate formatted citations in multiple styles, and track citation metrics for research and literature review workflows.
Caution. Specific findings reduced this grade. They are listed on the page. Grades reflect the full trust pyramid: code, verification depth, and reputation. New projects cap at C until adoption is earned.
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aringadre76
Source: PulseMCP
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The grade above is for the source repository. Registries can serve a different version, so we mark the ones we were not able to read.
These names and descriptions are the publisher's own, read from the source code. We print them as written. Our assessment is the findings above, not this list.
research_searchSearch PubMed, Google Scholar, and ArXiv. This tool passes overrideSources so the sources you list are queried even when a source is disabled in saved preferences. Date filters: startDate is passed to PubMed mindate as given (prefer YYYY/MM/DD). endDate supplies the publication year for ArXiv and Go…
paper_analysisRetrieve metadata and optional full text for one paper. Identifiers: PMID (digits), PMCID (PMC plus digits), DOI (10.... or doi:...), ArXiv (YYYY.NNNNN, arxiv:..., or legacy category/number with slash). basic returns metadata and abstract only. full-text loads PubMed PMC text when available, splits …
citation_managerBuild citations and optional PubMed citation counts. Identifiers match paper_analysis. generate and all require format (apa, mla, bibtex, ris, endnote). Each format uses distinct punctuation and fields. count queries NCBI for linkouts when a PMID exists. all runs formatted output plus the count. Rel…
research_preferencesRead or update persisted preferences on disk under ~/.mcp-scholarly-research/preferences.json. Source list supports pubmed, google-scholar, arxiv only (no JSTOR adapter). cache.enabled and ttlMinutes back an in-memory bounded cache used by research_search through PreferenceAwareUnifiedSearchAdapter.…
web_researchRequires FIRECRAWL_API_KEY. Only scrape (GET-like markdown for one URL) and search (Firecrawl web search with optional per-result scrape options) are implemented. The bundled client POSTs to Firecrawl v2 /scrape and /search; unsupported parameters from older docs are omitted here so models are not m…
Disclosed vulnerabilities in this server's declared npm dependencies (via OSV). Whether each is reachable depends on the installed versions.
@modelcontextprotocol/sdk has cross-client data leak via shared server/transport instance reuse
Anthropic's MCP TypeScript SDK has a ReDoS vulnerability
Model Context Protocol (MCP) TypeScript SDK does not enable DNS rebinding protection by default
axios Vulnerable to Full Man-in-the-Middle via Prototype Pollution Gadget in `config.proxy`
axios Vulnerable to Credential Theft and Response Hijacking via Prototype Pollution Gadget in Config Merge
CHROME_PATHFIRECRAWL_API_KEYFirecrawl-backed scrape (single URL) and search (open web). Requires .PUBMED_API_KEYPUPPETEER_EXECUTABLE_PATHA: These features need a local Chrome or Chromium binary. Install Google Chrome, or set =/path/to/chrome. PubMed, ArXiv API search, and Firecrawl features work without a browser.Dependencies
7 runtime dependencies (7 dev), 1 flagged: puppeteer-core
Tool annotations
No tools have read-only/destructive annotations
Add readOnlyHint or destructiveHint annotations to every tool so hosts can warn users before invoking.
All four hints declared on every tool
5/5 tools missing one or more hints — research_search (missing: readOnlyHint, destructiveHint, idempotentHint, openWorldHint); paper_analysis (missing: readOnlyHint, destructiveHint, idempotentHint, openWorldHint); citation_manager (missing: readOnlyHint, destructiveHint, idempotentHint, openWorldHint), +2 more. OpenAI's directory rejects tools where any of the four hints are missing or non-boolean.
For every tool, set all four hints (readOnlyHint, destructiveHint, idempotentHint, openWorldHint) to explicit true/false values that match the handler’s actual behaviour.
Shell command execution
1 call in production code run through a shell (src/utils/find-chrome.ts:52)
Prefer library functions over shell-outs. If you must shell out, ensure all inputs are properly escaped.
Production dependencies are patched
0 critical, 15 high severity in production deps — @modelcontextprotocol/sdk@1.17.3 (high), @modelcontextprotocol/sdk@1.17.3 (high)
Run npm audit fix, or upgrade the affected packages to a non-vulnerable version.
Dependency freshness
1/7 production deps stale: xml2js@2024-05-31 (2.3y)
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