reactome-database
查詢 Reactome 途徑並執行富集分析
Auch verfügbar von: K-Dense-AI
研究生物途徑需要搜索多個資料庫並進行統計分析。此技能可直接存取 Reactome 資料庫 REST API，用於途徑富集分析、基因-途徑映射和分子互動查詢。
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Verwendung von "reactome-database". Analyze these genes: TP53, BRCA1, EGFR, MYC
Erwartetes Ergebnis:
- Pathway: Cell Cycle, Mitotic (R-HSA-69278)
- Found: 15/450 entities, p-value: 0.000023, FDR: 0.00156
- Pathway: DNA Damage Response (R-HSA-69594)
- Found: 8/120 entities, p-value: 0.00045, FDR: 0.0182
- View results: https://reactome.org/PathwayBrowser#R-HSA-69278&DTAB=AN&ANALYSIS=...
Verwendung von "reactome-database". Search for pathways related to apoptosis
Erwartetes Ergebnis:
- R-HSA-109581: Apoptosis (Human)
- R-HSA-937041: Intrinsic Pathway for Apoptosis
- R-HSA-75153: Extrinsic Pathway for Apoptosis
- R-HSA-418457: Regulation of Apoptosis
Sicherheitsaudit
Niedriges RisikoLegitimate bioinformatics skill for querying Reactome pathway database. Network access is limited to official Reactome API endpoints (reactome.org). Filesystem access is restricted to user-specified gene list files and result outputs only. No credential or environment variable access. Static scanner detected documentation examples as code execution (false positives).
Risikofaktoren
🌐 Netzwerkzugriff (2)
📁 Dateisystemzugriff (2)
Qualitätsbewertung
Was du bauen kannst
識別富集途徑
提交來自差異表達實驗的基因列表，以找出顯著富集的生物途徑。
跨物種分析
使用物種投影將非人類基因標識符映射到人類途徑，進行比較研究。
途徑視覺化
產生帶有分析令牌的瀏覽器 URL，以便在 Reactome Pathway Browser 介面中視覺化結果。
Probiere diese Prompts
Use the reactome-database skill to query pathway R-HSA-69278 and show its description, species, and participating entities.
Perform pathway enrichment analysis on these genes: TP53, BRCA1, EGFR, MYC, CDK1. Show significant pathways with FDR values.
Search Reactome for pathways related to glycolysis. List the top 5 results with their identifiers and descriptions.
Analyze gene expression data from my TSV file. Which pathways are significantly enriched (FDR < 0.05)?
Bewährte Verfahren
- 提交基因列表時，使用每行一個標識符的純文字檔案，以確保可靠處理
- 儲存分析令牌以便稍後檢索結果，無需重新提交基因列表
- 使用 FDR < 0.05 過濾結果，專注於具有統計意義的途徑
Vermeiden
- 逐個提交標識符而非將它們批量處理
- 分析非人類基因列表時忽略物種差異
- 當標識符在 Reactome 中找不到時，不檢查映射失敗的情況