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ChIP-seq领域的一项核心挑战，是在基因组存在全范围变化的情况下实现数据的归一化处理。基于数据的归一化方法往往依赖一些并不成立的假设。若将这些方法错误应用于ChIP-seq数据，会导致生物学信号被抑制，或是对差异结合占有率产生错误定量。为开发可解决该难题的方法，我们生成了ChIP-seq数据，用以检测MCF7细胞在经100 nM氟维司群（Fulvestrant）处理48小时前后的雌激素受体α（Estrogen Receptor-alpha，简称ER）结合情况。本数据集采用了一种新型内参——CCCTC结合因子（CTCF）结合位点，用于数据归一化。