Benchmarking algorithms for joint integration of unpaired and paired single-cell RNA-seq and ATAC-seq data.

ABSTRACT:

Background

Single-cell RNA-sequencing (scRNA-seq) measures gene expression in single cells, while single-nucleus ATAC-sequencing (snATAC-seq) quantifies chromatin accessibility in single nuclei. These two data types provide complementary information for deciphering cell types and states. However, when analyzed individually, they sometimes produce conflicting results regarding cell type/state assignment. The power is compromised since the two modalities reflect the same underlying biology. Recently, it has become possible to measure both gene expression and chromatin accessibility from the same nucleus. Such paired data enable the direct modeling of the relationships between the two modalities. Given the availability of the vast amount of single-modality data, it is desirable to int

SUBMITTER: Lee MYY 

PROVIDER: S-EPMC10594700 | biostudies-literature | 2023 Oct

REPOSITORIES: biostudies-literature