ReadZS detects cell type-specific and developmentally regulated RNA processing programs in single-cell RNA-seq

被引：0
作者：
Elisabeth Meyer
Kaitlin Chaung
Roozbeh Dehghannasiri
Julia Salzman
机构：
[1] Stanford University,Department of Biochemistry
[2] Stanford University,Department of Biomedical Data Science
[3] Stanford University,Department of Statistics (by courtesy)
来源：
Genome Biology | / 23卷
关键词：
scRNA-seq; Differential RNA processing; Alternative polyadenylation; Untranslated regions;
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摘要：
RNA processing, including splicing and alternative polyadenylation, is crucial to gene function and regulation, but methods to detect RNA processing from single-cell RNA sequencing data are limited by reliance on pre-existing annotations, peak calling heuristics, and collapsing measurements by cell type. We introduce ReadZS, an annotation-free statistical approach to identify regulated RNA processing in single cells. ReadZS discovers cell type-specific RNA processing in human lung and conserved, developmentally regulated RNA processing in mammalian spermatogenesis—including global 3′ UTR shortening in human spermatogenesis. ReadZS also discovers global 3′ UTR lengthening in Arabidopsis development, highlighting the usefulness of this method in under-annotated transcriptomes.
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