The curses of performing differential expression analysis using single-cell data
Chih-Hsuan Wu,
Xiang Zhou,
Mengjie Chen
Abstract:Differential expression analysis is pivotal in single-cell transcriptomics for unraveling cell-type– specific responses to stimuli. While numerous methods are available to identify differentially expressed genes in single-cell data, recent evaluations of both single-cell–specific methods and methods adapted from bulk studies have revealed significant shortcomings in performance. In this paper, we dissect the four major challenges in single-cell DE analysis: normalization, excessive zeros, donor effects, and cu… Show more
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