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 |

全面的表观基因组学和基因调控分析，集成了 ENCODE 功能基因组数据、JASPAR 转录因子结合基序、SCREEN 顺式调控元件、ReMap TF 结合位点、RegulomeDB 变异调控评分、4D Nucleome 染色质构象和 Ensembl 调控特征。执行调控元件编目、转录因子分析、变异调控影响评分、染色质构象图谱和以基因为中心的调控景观分析。当询问基因调控、增强子、启动子、转录因子结合、表观遗传修饰、染色质结构、调控变异或非编码基因组功能时使用。 来源：mims-harvard/tooluniverse。

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