Systematic benchmark of single-cell hashtag demultiplexing approaches reveals robust performance of a clustering-based method.

ABSTRACT: Single-cell technology opened up a new avenue to delineate cellular status at a single-cell resolution and has become an essential tool for studying human diseases. Multiplexing allows cost-effective experiments by combining multiple samples and effectively mitigates batch effects. It starts by giving each sample a unique tag and then pooling them together for library preparation and sequencing. After sequencing, sample demultiplexing is performed based on tag detection, where cells belonging to one sample are expected to have a higher amount of the corresponding tag than cells from other samples. However, in reality, demultiplexing is not straightforward due to the noise and contamination from various sources. Successful demultiplexing depends on the efficient removal of such contaminatio

SUBMITTER: Sayed M 

PROVIDER: S-EPMC11735735 | biostudies-literature | 2025 Jan

REPOSITORIES: biostudies-literature