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

ABSTRACT: Single-cell RNA-sequencing (scRNA-seq) measures gene expression in single cells, while single-nucleus ATAC-sequencing (snATAC-seq) enables the quantification of chromatin accessibility in single nuclei. These two data types provide complementary information for deciphering cell types/states. However, when analyzed individually, scRNA-seq and snATAC-seq data often produce conflicting results regarding cell type/state assignment. In addition, there is a loss of power as the two modalities reflect the same underlying cell types/states. Recently, it has become possible to measure both gene expression and chromatin accessibility from the same nucleus. Such paired data make it possible to directly model the relationships between the two modalities. However, given the availability of the vast amo

SUBMITTER: Lee MYY 

PROVIDER: S-EPMC9915567 | biostudies-literature | 2023 Feb

REPOSITORIES: biostudies-literature