biostudies-literatureSanto BNIDDK NIH HHSNational Institute of Diabetes and Digestive and Kidney Diseases111628https://www.ebi.ac.uk/biostudies/studies/S-EPMC11754086biostudies-literatureUnknown28(1)Single cell sequencing technologies have revolutionized our understanding of biology by mapping cell diversity and gene expression in healthy and diseased tissues. While single-cell RNA sequencing (scRNA-seq) has been widely used, interest in single-nucleus RNA sequencing (snRNA-seq) is growing due to its benefits, including the ability to analyze archival tissues and capture rare cell types that are challenging to dissociate. However, comparative studies across tissues have yielded mixed results, with some reporting enhanced cell type retention using snRNA-seq while others finding cell type identification to be challenging in snRNA-seq data. The GUDMAP consortium aims to construct a molecular atlas of the lower urinary tract (LUT); thus, we set out to determine the strengths and limitatioiScienceExploring the utility of snRNA-seq in profiling human bladder tissue: A comprehensive comparison with scRNA-seq.PMC11754086U01 DK131383Fink EEWee ASanto BLin YCKrylova AEEltemamy MWessely OLee BHTing AHfalseExploring the utility of snRNA-seq in profiling human bladder tissue: A comprehensive comparison with scRNA-seq.Single cell sequencing technologies have revolutionized our understanding of biology by mapping cell diversity and gene expression in healthy and diseased tissues. While single-cell RNA sequencing (scRNA-seq) has been widely used, interest in single-nucleus RNA sequencing (snRNA-seq) is growing due to its benefits, including the ability to analyze archival tissues and capture rare cell types that are challenging to dissociate. However, comparative studies across tissues have yielded mixed results, with some reporting enhanced cell type retention using snRNA-seq while others finding cell type identification to be challenging in snRNA-seq data. The GUDMAP consortium aims to construct a molecular atlas of the lower urinary tract (LUT); thus, we set out to determine the strengths and limitatio2025-01-01T00:00:00Z2025 Jan2025-04-19T18:20:21.722Z2025-04-19T18:20:21.722ZS-EPMC117540863985035410.1016/j.isci.2024.111628