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Precision oncology agent

Skill bg-szy/TOP-SKILLS/skills/awesome-skills/precision-oncology-agent

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Install
npx -y skills add bg-szy/TOP-SKILLS --skill precision-oncology-agent

Assembled from the repository path, not quoted from the project. Check it against their README if it does not work.

2 things to look at

  • no licenseNo license file was found in the repository. Code published without one is not open source by default, so using it at work is a question for whoever answers licensing questions where you are.
  • 4 stars4 stars. Stars are a popularity signal and not a quality one, but at this level it is likely that nobody has read this closely except its author, and you would be relying on your own review.

What its author says it does

Copied from the file, not written here

Fuse genomic variants, pathology findings, and clinical context to draft evidence-linked therapy options for tumor board review.

SKILL.md

2.1 KB, as published. Nobody here has run it

<!-- # COPYRIGHT NOTICE # This file is part of the "Universal Biomedical Skills" project. # Copyright (c) 2026 MD BABU MIA, PhD <[email protected]> # All Rights Reserved. # # This code is proprietary and confidential. # Unauthorized copying of this file, via any medium is strictly prohibited. # # Provenance: Authenticated by MD BABU MIA -->

At-a-Glance

  • description (10-20 chars): Tumor board copilot
  • keywords: oncology, genomics, OncoKB, therapy-ranking, evidence
  • measurable_outcome: Deliver a ranked therapy list with OncoKB/NCCN citations plus data-gap checklist for every case within 10 minutes of receiving inputs.

Inputs

  • vcf_path (hg38 preferred) plus optional CNV/fusion summaries.
  • pathology_report text for histology/grade/biomarkers.
  • clinical_context dict capturing tumor type, stage, prior lines, ECOG.

Outputs

  1. Ranked treatment options (approved, off-label, clinical trials) with evidence strength + contraindications.
  2. Variant interpretation table (pathogenicity, tier, therapy linkage).
  3. Biomarker summary (TMB, MSI, PD-L1 if provided) and missing-test checklist.

Workflow

  1. Ingest & normalize: Harmonize gene symbols, genome build, and variant effects.
  2. Annotate: Query OncoKB/NCCN + internal knowledge for actionability tiers.
  3. Contextualize: Blend pathology + prior therapy info to filter contraindicated options.
  4. Recommend: Present therapies ordered by evidence + patient fit; cite sources.
  5. Gaps: Highlight assays or confirmations still required before treatment.

Guardrails

  • No autonomous treatment decisions—flag outputs as advisory.
  • Cite evidence rigorously (guideline version, publication).
  • Highlight resistance mechanisms and prior exposure conflicts.

References

  • See README.md for detailed workflow plus cited Nature Cancer study.
<!-- AUTHOR_SIGNATURE: 9a7f3c2e-MD-BABU-MIA-2026-MSSM-SECURE -->

Keep looking

Skills are one crate of 328,083. Ordering is by how many stacks a row turns up in, so the top of any crate is what has actually been picked rather than what has the most stars.