Improved quality metrics for association and reproducibility in chromatin accessibility data using mutual information.

ABSTRACT:

Background

Correlation metrics are widely utilized in genomics analysis and often implemented with little regard to assumptions of normality, homoscedasticity, and independence of values. This is especially true when comparing values between replicated sequencing experiments that probe chromatin accessibility, such as assays for transposase-accessible chromatin via sequencing (ATAC-seq). Such data can possess several regions across the human genome with little to no sequencing depth and are thus non-normal with a large portion of zero values. Despite distributed use in the epigenomics field, few studies have evaluated and benchmarked how correlation and association statistics behave across ATAC-seq experiments with known differences or the effects of removing specific outliers from

SUBMITTER: Roth C 

PROVIDER: S-EPMC10664258 | biostudies-literature | 2023 Nov

REPOSITORIES: biostudies-literature