MRC Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX3 9DS, UK.
MRC WIMM Centre for Computational Biology, MRC Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX3 9DS, UK.
Nucleic Acids Res. 2023 Mar 21;51(5):e29. doi: 10.1093/nar/gkac1260.
Alternative splicing is an important source of heterogeneity underlying gene expression between individual cells but remains an understudied area due to the paucity of computational tools to analyze splicing dynamics at single-cell resolution. Here, we present MARVEL, a comprehensive R package for single-cell splicing analysis applicable to RNA sequencing generated from the plate- and droplet-based methods. We performed extensive benchmarking of MARVEL against available tools and demonstrated its utility by analyzing multiple publicly available datasets in diverse cell types, including in disease. MARVEL enables systematic and integrated splicing and gene expression analysis of single cells to characterize the splicing landscape and reveal biological insights.
可变剪接是个体细胞间基因表达异质性的重要来源，但由于缺乏在单细胞分辨率下分析剪接动态的计算工具，该领域的研究仍然较少。在这里，我们提出了 MARVEL，这是一个适用于基于平板和液滴的方法生成的 RNA 测序的单细胞剪接分析的综合 R 包。我们对 MARVEL 与现有工具进行了广泛的基准测试，并通过分析包括疾病在内的多种不同细胞类型的多个公开可用数据集证明了其效用。MARVEL 能够对单细胞进行系统和综合的剪接和基因表达分析，以描绘剪接图谱并揭示生物学见解。
