SifiNet: a robust and accurate method to identify feature gene sets and annotate cells

Nucleic Acids Res. 2024 Apr 22:gkae307. doi: 10.1093/nar/gkae307. Online ahead of print.ABSTRACTSifiNet is a robust and accurate computational pipeline for identifying distinct gene sets, extracting and annotating cellular subpopulations, and elucidating intrinsic relationships among these subpopulations. Uniquely, SifiNet bypasses the cell clustering stage, commonly integrated into other cellular annotation pipelines, thereby circumventing potential inaccuracies in clustering that may compromise subsequent analyses. Consequently, SifiNet has demonstrated superior performance in multiple experimental datasets compared with other state-of-the-art methods. SifiNet can analyze both single-cell RNA and ATAC sequencing data, thereby rendering comprehensive multi-omic cellular profiles. It is conveniently available as an open-source R package.PMID:38647069 | DOI:10.1093/nar/gkae307

Source: Cell Research - April 22, 2024 Category: Cytology Authors: Qi Gao Zhicheng Ji Liuyang Wang Kouros Owzar Qi-Jing Li Cliburn Chan Jichun Xie Source Type: research