ADReCS-query

分类: 数据库与数据存储 | 上传者: QSong-github | 下载: 0 | 版本: v1.0（最新）

查询ADReCS（药物不良反应分类系统）v3.3数据库。每当用户询问药物不良反应、药物安全性概况、ADR 分类、ADR 严重性/频率或想要在 ADReCS 中查找任何实体（药物名称、BADD 药物 ID、DrugBank ID、ATC 代码、CAS RN、PubChem CID、KEGG ID、ADR 术语、ADReCS ID、MedDRA 代码、MeSH ID）时使用。 --- # ADReCS 查询技能通过任何实体搜索 ADReCS v3.3 记录。按前缀自动检测类型：|输入模式 |检测为 |示例| |---|---|---| | `BADD_D00142` |不良药物 ID |精确于 drug_id 列 | | `DB00945` |药物银行 ID |通过 Drug_information 解决 | | `A02BC01` |空管代码 |通过 Drug_information 解决 | | `50-78-2` | CAS 注册号 |通过 Drug_information 解决 | | `CID2244` 或裸数字 | PubChem CID |通过 Drug_information 解决 | | `D00109`（5 位数字）| KEGG ID |通过 Drug_information 解决 | | `08.06.02.001` | ADReCS ID | ADReCS_ID 列上的子字符串 | | `10003781`（8 位数字）| MedDRA 代码 |通过 ADR_ontology 解决 | | `D######`（6 位以上数字）|主题词 ID |通过 ADR_ontology 解决 | |还有什么吗|自由文本 | drug_name 或 ADR_term 上的子字符串 | ## API |功能|输入 |返回| |---|---|---| | `load_drug_adr(路径)` | txt路径| DataFrame（药物-ADR 对）| | `load_drug_info(路径)` | xlsx路径| DataFrame（药物元数据）| | `load_adr_ontology(路径)` | xlsx路径| DataFrame（ADR 层次结构）| | `搜索（实体）` |单个实体字符串|匹配药物-ADR 行的数据框 | | `search_batch（实体）` |实体字符串列表 |字典[str，数据帧] | | `总结（点击数，实体）` |数据框+标签|紧凑的法学硕士可读文本| | `to_json（点击）` |数据框|列表[字典] | ## 用法请参阅 `62_ADReCS.py` 中的 `if __name__ == "__main__"` 块，了解可运行示例，包括：药物名称查找、BADD 药物 ID、DrugBank ID、ADR 术语、ADReCS ID 前缀、批量搜索和 JSON 输出。 ## 数据 - **来源**：ADReCS v3.3 — [https://www.bio-add.org/ADReCS/](https://www.bio-add.org/ADReCS/) - **主要

更新日志: Source: GitHub https://github.com/QSong-github/DrugClaw

目录结构

当前层级: tree/main/skills/adr/adrecs/

📄 __init__.py 130 B
📄 adrecs_skill.py 3.3 KB
📄 example.py 14.7 KB
📄 README.md 993 B
📄 retrieve.py 1018 B
📄 SKILL.md 2.5 KB

SKILL.md

---
name: ADReCS-query
description: >
  Query the ADReCS (Adverse Drug Reaction Classification System) v3.3 database.
  Use whenever the user asks about adverse drug reactions, drug safety profiles,
  ADR classification, ADR severity/frequency, or wants to look up any entity
  (drug name, BADD Drug ID, DrugBank ID, ATC code, CAS RN, PubChem CID, KEGG ID,
  ADR term, ADReCS ID, MedDRA code, MeSH ID) in ADReCS.
---

# ADReCS Query Skill

Search ADReCS v3.3 records by any entity. Auto-detects type by prefix:

| Input Pattern | Detected As | Example |
|---|---|---|
| `BADD_D00142` | BADD Drug ID | exact on drug_id column |
| `DB00945` | DrugBank ID | resolved via Drug_information |
| `A02BC01` | ATC code | resolved via Drug_information |
| `50-78-2` | CAS RN | resolved via Drug_information |
| `CID2244` or bare digits | PubChem CID | resolved via Drug_information |
| `D00109` (5-digit) | KEGG ID | resolved via Drug_information |
| `08.06.02.001` | ADReCS ID | substring on ADReCS_ID column |
| `10003781` (8-digit) | MedDRA code | resolved via ADR_ontology |
| `D######` (6+ digit) | MeSH ID | resolved via ADR_ontology |
| anything else | free text | substring on drug_name OR ADR_term |

## API

| Function | Input | Returns |
|---|---|---|
| `load_drug_adr(path)` | txt path | DataFrame (Drug–ADR pairs) |
| `load_drug_info(path)` | xlsx path | DataFrame (drug metadata) |
| `load_adr_ontology(path)` | xlsx path | DataFrame (ADR hierarchy) |
| `search(entity)` | single entity string | DataFrame of matching Drug–ADR rows |
| `search_batch(entities)` | list of entity strings | dict[str, DataFrame] |
| `summarize(hits, entity)` | DataFrame + label | compact LLM-readable text |
| `to_json(hits)` | DataFrame | list[dict] |

## Usage

See `if __name__ == "__main__"` block in `62_ADReCS.py` for runnable examples covering: drug name lookup, BADD Drug ID, DrugBank ID, ADR term, ADReCS ID prefix, batch search, and JSON output.

## Data

- **Source**: ADReCS v3.3 — [https://www.bio-add.org/ADReCS/](https://www.bio-add.org/ADReCS/)
- **Primary file**: `Drug_ADR_v3.3.txt` (drug–ADR association pairs)
- **Drug metadata**: `Drug_information_v3.3.xlsx` (name, synonyms, DrugBank/KEGG/PubChem/ATC/CAS cross-refs)
- **ADR hierarchy**: `ADR_ontology_v3.3.xlsx` (ADReCS ID, ADR term, MedDRA code, MeSH ID, 4-level classification)
- **Path**: `DATA_DIR` variable in `62_ADReCS.py`

## Citation

Cai MC et al. (2015) ADReCS: an ontology database for aiding standardization and hierarchical classification of adverse drug reaction terms. *Nucleic Acids Research* 43(D1):D907–D913.

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ADReCS-query

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SKILL.md

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