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SKILL verified MIT Self-run

Bio Knowledge Databases

skill-onescience-ai-oneskills-knowledge-databases · by onescience-ai

生物信息知识库与数据库范畴路由。用于文献、序列、公共测序、变异临床、通路互作、结构、化合物、药物靶点、单细胞图谱等数据库查询与证据整理任务，选择具体 database skill。

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Install

$ agentstack add skill-onescience-ai-oneskills-knowledge-databases

✓ scanned · ✓ verified, works with Claude Code, Cursor, and more.

Security review

✓ Passed

No issues found. Passed automated security review. · v0.1.0 How review works →

  • ✓ Prompt-injection patterns
  • ✓ Secret / credential exfiltration
  • ✓ Dangerous shell & filesystem operations
  • ✓ Untrusted network calls
  • ✓ Known-malicious package signatures

What it can access

  • ✓ Network access No
  • ✓ Filesystem access No
  • ✓ Shell / process execution No
  • ✓ Environment & secrets No
  • ✓ Dynamic code execution No

From automated source analysis of v0.1.0. “Used” means the capability is present in the source — more access means more to trust, not that it’s unsafe.

View the full security report →

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Reliability & compatibility

✓ Security review passed
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● 2mo ago

Declared compatibility

Claude CodeClaude Desktop

Compatibility is declared by the source manifest. End-to-end runtime verification is coming, see below.

Preview Execution monitoring

We're building live execution health for every listing: tool-call success rate, median latency, uptime, and last-checked timestamps, measured, not self-reported. It isn't live yet, so we don't show numbers we can't stand behind.

How agent discovery & health will work →
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About

生信知识库与数据库范畴路由

当用户主要目标是查找、下载、汇总或交叉链接公共知识库信息时，使用本范畴。需要实际联网时，由执行层按权限处理；本层负责查询设计和交接。

具体 skill 路由

  • PubMed、NCBI Gene/Protein/Nucleotide、SRA/GEO、UniProt、Ensembl：读取 ./literature-sequence-search/SKILL.md
  • ClinVar、gnomAD、dbSNP、COSMIC、cBioPortal、DepMap：读取 ./variant-clinical-databases/SKILL.md
  • GO、KEGG、Reactome、STRING、BRENDA、JASPAR、WikiPathways：读取 ./pathway-ppi-databases/SKILL.md
  • PDB、EMDB、AlphaFold DB、PubChem、ChEMBL、DrugBank、ZINC、OpenTargets：读取 ./structure-compound-databases/SKILL.md
  • cell atlas、cellxgene、reference mapping、ARCHS4：读取 ./single-cell-atlas-databases/SKILL.md
  • PRIDE、PeptideAtlas、MassIVE、HMDB、Metabolomics Workbench、RefMet、GNPS：读取 ./proteomics-metabolomics-databases/SKILL.md
  • ENCODE、ReMap、Cistrome、JASPAR motif、RegulomeDB、Roadmap epigenomics、UCSC tracks：读取 ./regulatory-annotation-databases/SKILL.md

交接规则

输出时至少整理：

  • database_family
  • query_terms
  • identifier_type
  • species_or_taxon
  • release_or_date
  • return_fields
  • output_format
  • execution_entry

Source & license

This open-source skill is cataloged on AgentStack and links to its original source — we do not rehost the code.

Install and usage instructions live in the source repository linked above.

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Versions

  • v0.1.0 Imported from the upstream source.

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