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- Title
Simultaneous profiling of RNA isoforms and chromatin accessibility of single cells of human retinal organoids.
- Authors
Zhang, Shuyao; Xiao, Yuhua; Mo, Xinzhi; Chen, Xu; Zhong, Jiawei; Chen, Zheyao; Liu, Xu; Qiu, Yuanhui; Dai, Wangxuan; Chen, Jia; Jin, Xishan; Fan, Guoping; Hu, Youjin
- Abstract
Single-cell multi-omics sequencing is a powerful approach to analyze complex mechanisms underlying neuronal development and regeneration. However, current methods lack the ability to simultaneously profile RNA alternative splicing and chromatin accessibility at the single-cell level. We develop a technique, single-cell RNA isoform and chromatin accessibility sequencing (scRICA-seq), which demonstrates higher sensitivity and cost-effectiveness compared to existing methods. scRICA-seq can profile both isoforms and chromatin accessibility for up to 10,000 single cells in a single run. Applying this method to human retinal organoids, we construct a multi-omic cell atlas and reveal associations between chromatin accessibility, isoform expression of fate-determining factors, and alternative splicing events in their binding sites. This study provides insights into integrating epigenetics, transcription, and RNA splicing to elucidate the mechanisms underlying retinal neuronal development and fate determination. Here, the authors present scRICA-seq, which is capable of profiling isoforms and chromatin accessibility for up to 10,000 single cells in a single run. By applying this method to human retinal organoids, they construct a multi-omic cell atlas.
- Subjects
ALTERNATIVE RNA splicing; NERVOUS system regeneration; CHROMATIN; BINDING sites; GENETIC transcription
- Publication
Nature Communications, 2024, Vol 15, Issue 1, p1
- ISSN
2041-1723
- Publication type
Article
- DOI
10.1038/s41467-024-52335-0