A Cosine Similarity-Based Method to Infer Variability of Chromatin Accessibility at the Single-Cell Level.

ABSTRACT: Cellular identity between generations of developing cells is propagated through the epigenome particularly via the accessible parts of the chromatin. It is now possible to measure chromatin accessibility at single-cell resolution using single-cell assay for transposase accessible chromatin (scATAC-seq), which can reveal the regulatory variation behind the phenotypic variation. However, single-cell chromatin accessibility data are sparse, binary, and high dimensional, leading to unique computational challenges. To overcome these difficulties, we developed PRISM, a computational workflow that quantifies cell-to-cell chromatin accessibility variation while controlling for technical biases. PRISM is a novel multidimensional scaling-based method using angular cosine distance metrics coupled wit

SUBMITTER: Cai S 

PROVIDER: S-EPMC6103536 | biostudies-literature | 2018

REPOSITORIES: biostudies-literature