ER ChIP-seq on Treatment of Fulvestrant with CTCF Control

A key challenge in quantitative ChIP-seq is the normalisation of data in the presence of genome-wide changes. Data-based methods often rely on assumptions that do not hold true. Misapplication of these methods to ChIP-seq data results in the suppression of the biological signal or erroneous measurement of differential occupancy. To develop methods that address this challenge, we generated ChIP-seq data measuring Estrogen Receptor-alpha (ER) binding in MCF7 before and after 100 nm Fulvestrant treatment for 48 hours. This data includes the use of a novel internal control, CTCF binding, to normalise.

定量染色质免疫共沉淀测序（ChIP-seq）领域的核心挑战之一，是在存在全基因组水平变化的场景下开展数据标准化处理。基于数据的标准化方法通常依赖若干并不成立的假设前提。若将此类方法错误应用于ChIP-seq数据，将导致生物学信号遭到抑制，或是对差异结合占有率的测量产生偏差。为开发能够解决该难题的标准化方法，我们生成了一组ChIP-seq数据，用于检测人乳腺癌细胞系MCF-7在经100 nm氟维司群（Fulvestrant）处理48小时前后的雌激素受体α（Estrogen Receptor-alpha, ER）结合状态。本数据集采用了一种新型内参——CCCTC结合因子（CTCF）结合位点，以实现数据标准化。