tooluniverse-epigenomics

SKILL.md

Comprehensive analysis of the regulatory genome integrating functional genomics experiments, transcription factor binding data, cis-regulatory element catalogs, chromatin conformation, and variant regulatory scoring. Generates structured regulatory landscape reports with evidence grading.

| T1 | [T1] | Direct experimental validation, functional assay | CRISPR-validated enhancer, reporter assay, luciferase | | T2 | [T2] | High-quality experimental data, curated | ENCODE ChIP-seq peak, SCREEN cCRE, ReMap binding site | | T3 | [T3] | Computational prediction, motif match | JASPAR motif score, RegulomeDB score, Ensembl regulatory prediction |

| T4 | [T4] | Association, text-mined, low confidence | Literature mention, low-score motif match, inferred regulation |

全面的表觀基因組學和基因調控分析，整合了 ENCODE 功能基因組資料、JASPAR 轉錄因子結合基序、SCREEN 順式調控元件、ReMap TF 結合位點、RegulomeDB 變異調控評分、4D Nucleome 染色質構象和 Ensembl 調控特徵。執行調控元件編目、轉錄因子分析、變異調控影響評分、染色質構形圖譜及以基因為中心的調控景觀分析。當詢問基因調控、增強子、啟動子、轉錄因子結合、表觀遺傳修飾、染色質結構、調控變異或非編碼基因組功能時使用。 來源：mims-harvard/tooluniverse。

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