tooluniverse-variant-interpretation
Clinical variant interpretation from raw variant calls to ACMG-classified recommendations with structural impact analysis. Use for VUS classification, pathogenicity assessment with cited criteria, structure-based variant impact (AlphaFold/PDB), non-coding/regulatory variant effect prediction with sequence deep-learning models (AlphaGenome, Enformer, Borzoi, ChromBPNet, Evo 2), and producing clinical-grade variant reports for return of results or molecular tumor boards. Use this whenever a user asks about a variant's significance, an intronic/promoter/enhancer/UTR non-coding variant's functional impact, or needs ACMG classification — even if they don't say "ACMG".
89%
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Low
Low-risk findings worth noting
The canonical home for this skill is tooluniverse-variant-interpretation in mims-harvard/ToolUniverse
W011: Third-party content exposure detected (indirect prompt injection risk).
What this means
The skill exposes the agent to untrusted, user-generated content from public third-party sources, creating a risk of indirect prompt injection. This includes browsing arbitrary URLs, reading social media posts or forum comments, and analyzing content from unknown websites.
Why it was flagged
The workflow queries public literature and database search tools (such as PubMed, EuropePMC, CIViC, and ClinVar) where outsider-submitted free text or papers can be ingested by the agent.
W012: Unverifiable external dependency detected (runtime URL that controls agent).
What this means
The skill fetches instructions or code from an external URL at runtime, and the fetched content directly controls the agent’s prompts or executes code. This dynamic dependency allows the external source to modify the agent’s behavior without any changes to the skill itself.
Why it was flagged
The instruction references installing an unmerged feature branch via `pip install 'esm @ git+https://github.com/evolutionaryscale/esm@ee891c52'`, which introduces an unverifiable external Git-repository dependency during runtime setup.
- Audited
- Security analysis
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