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scCOSMIX:一种混合效应框架,用于在单细胞RNA-Seqq中对差异同表达和转录相互作用进行建模

Anderson Bussing¹, Giampiero Marra², Daping Fan³

¹Department of Statistics, University of South Carolina, Columbia, South Carolina, USA.

Statistics in medicine

|August 7, 2025

概括

我们开发了scCOSMiX,这是一个新的统计框架,用于分析单细胞RNA测序 (scRNA-seq) 数据中的基因相互作用. 这种方法可以考虑个体患者的数据,改善动态基因表达变化的研究.

科学领域:

基因组学就是基因组学.
生物信息学是一种生物信息学.
计算生物学计算生物学

背景情况:

单细胞RNA测序 (scRNA-seq) 提供了高分辨率的基因表达数据.
了解动态的基因-基因相互作用对于细胞过程至关重要.
现有的方法与多主体scRNA-seq数据的层次结构作斗争.

研究的目的:

介绍scCOSMiX,一种新的混合效应框架,用于scRNA-seq.中的差异性共同表达分析.
为了应对scRNA-seq数据中受试者细胞-细胞相关性的挑战.
在复杂的实验设计中实现动态基因相互作用的强大建模.

主要方法:

开发了一个基于copula的混合效果框架 (scCOSMiX).
整合了主体级随机效应,以考虑个体内细胞相关性.
模拟零通胀,边际和关联参数作为共变量的函数.

主要成果:

与现有方法相比,scCOSMiX 在模拟研究中表现出优异的性能.
该框架有效地模拟了有条件的共同表达变化.
在多种不同的scRNA-seq协议 (基于滴滴和板块) 中显示的适用性.

结论:

scCOSMiX提供了一个强大的方法来分析scRNA-seq数据中的动态基因相互作用.
该方法准确地处理了多主体实验的等级性质.
这一框架增强了在单细胞分辨率下对基因-基因关系的系统研究.

关键词:

不同的共同表达差异化表达.层次化的研究设计设计.混合效应混合效应混合效应一个单细胞RNA-seqq.零膨胀的形模型模型.

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