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tooluniverse-sequence-retrieval
维护者 FreedomIntelligence · 最近更新 2026年4月1日
Retrieves biological sequences (DNA, RNA, protein) from NCBI and ENA with gene disambiguation, accession type handling, and comprehensive sequence profiles. Creates detailed reports with sequence metadata, cross-database references, and download options. Use when users need nucleotide sequences, protein sequences, genome data, or mention GenBank, RefSeq, EMBL accessions.
原始来源
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/tooluniverse-sequence-retrieval
- 维护者
- FreedomIntelligence
- 许可
- MIT
- 最近更新
- 2026年4月1日
技能摘要
来自 SKILL.md 的关键信息
核心说明
- 获取 DNA，RNA，、 protein sequences ，支持 proper disambiguation 、 cross-database handling。
- IMPORTANT：Always use English terms in tool calls (gene names，organism names，sequence descriptions)，even if user writes in another language. Only try original-language terms as fallback if English returns no results. Respond in user's language。
- if user_provided_accession：# Direct retrieval based on accession type accession = user_provided_accession elif user_provided_gene_and_organism：# Search NCBI Nucleotide result = tu.tools.NCBI_search_nucleotide( operation="search"，organism=organism，gene=gene，limit=10 )。
原始文档
SKILL.md 摘录
Phase 0: Clarification (When Needed)
Ask the user ONLY if:
- Gene name exists in multiple organisms (e.g., "BRCA1" → human or mouse?)
- Sequence type unclear (mRNA, genomic, protein?)
- Strain/isolate matters (e.g., E. coli → K-12, O157:H7, etc.)
Skip clarification for:
- Specific accession numbers (NC_, NM_, U*, etc.)
- Clear organism + gene combinations
- Complete genome requests with organism specified
1.1 Resolve Identifiers
from tooluniverse import ToolUniverse
tu = ToolUniverse()
tu.load_tools()
## 1.2 Accession Type Decision Tree
**CRITICAL**: Accession prefix determines which tools to use.
| Prefix | Type | Use With |
|--------|------|----------|
| NC_* | RefSeq chromosome | NCBI only |
| NM_* | RefSeq mRNA | NCBI only |
| NR_* | RefSeq ncRNA | NCBI only |
| NP_* | RefSeq protein | NCBI only |
| XM_* | RefSeq predicted mRNA | NCBI only |
| U*, M*, K*, X* | GenBank | NCBI or ENA |
| CP*, NZ_* | GenBank genome | NCBI or ENA |
| EMBL format | EMBL | ENA preferred |
适用场景
- 适合在users need nucleotide sequences，protein sequences，genome data，或 mention GenBank，RefSeq，EMBL accessions时使用。
不适用场景
- Do not rely on this catalog entry alone ，用于 installation 或 maintenance details。
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