ATAC-seq Footprint Analysis

关于

Identifies transcription factor (TF) occupancy and activity patterns by modeling the depletion of Tn5 insertions at motif sites within ATAC-seq data. This skill automates the complex TOBIAS workflow, including sequence bias correction, motif scanning, footprint scoring, and differential binding analysis across multiple experimental conditions. It is an essential tool for researchers seeking to map high-resolution TF binding events and compare regulatory landscapes without the need for specialized ChIP-seq experiments, supporting deep insights into cellular differentiation and perturbations.

主要功能

• Automates motif scanning and footprint score generation across the genome
• Supports quantitative TF occupancy analysis at JASPAR motif sites
• Corrects Tn5 sequence bias using the ATACorrect algorithm
• Generates high-quality aggregate footprint visualization plots
• Detects differential TF binding activity between experimental conditions
• 2 GitHub stars

使用场景

• Mapping transcription factor binding sites when ChIP-seq data is unavailable
• Comparing TF footprint strength and activity between different cell types or treatments
• Identifying TFs that gain or lose binding activity during cellular differentiation