尖叫声:使用Multiomics的表示自编码器进行单细胞聚类
Panagiotis Chrysinas1, Shriramprasad Venkatesan1, Priya Ghanshyambhai Patel1
1Department of Chemical and Biological Engineering, University at Buffalo-SUNY, Buffalo, NY 14260.
bioRxiv : the preprint server for biology
|November 24, 2025
概括
我们开发了SCREAM,这是一个深度学习框架,用于整合多式联运单细胞数据. SCREAM 准确地使用强大的潜伏表示集群细胞,从复杂的奥米克数据集中改进细胞类型识别.
科学领域:
- 单细胞生物学 单细胞生物学
- 计算生物学是一种计算生物学.
- 基因组学就是基因组学.
背景情况:
- 单细胞多组技术为细胞异质性提供了深入的见解.
- 整合多样化的OMIC数据带来了诸如高维度和噪音等挑战.
- 开发用于多式联运单细胞数据集成的强有力的方法至关重要.
研究的目的:
- 引入SCREAM,这是一个新的深度学习框架,用于强大的集成和聚类多式联网单细胞数据.
- 解决单细胞数据集成方面的挑战,包括高维度和模式特定的噪声.
- 为了从复杂的单细胞多组数据集中准确识别细胞类型.
主要方法:
- SCREAM使用堆叠的自动编码器 (SAE) 来创建单个omics模式及其融合的潜在表示.
- 该框架采用深层嵌入集群 (DEC) 来完善集成的潜伏空间和细胞集群分配.
- SCREAM是一种深度学习方法,旨在用于多模式单细胞数据分析.
主要成果:
- 与SNARE-seq和CITE-seq数据集上的11种最先进的方法相比,SCREAM表现出卓越的性能.
- 该方法实现了最高或接近最高的调整兰德指数 (ARI) 和规范化相互信息 (NMI) 得分.
- SCREAM为下游分析提供了生物学上有意义的多组学嵌入.
结论:
- SCREAM是一种高精度和强大的细胞类型识别方法,使用多组数据进行识别.
- 该框架有效地整合和集群多式联运单细胞数据.
- SCREAM为各种生物研究提供了有价值的潜在表示.
相关概念视频
03:21RNA-seq
11.7K
RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
11.7K
01:58Cell Specific Gene Expression
5.4K
5.4K
01:58Cell Specific Gene Expression
16.2K
Multicellular organisms contain a variety of structurally and functionally distinct cell types, but the DNA in all the cells originated from the same parent cells. The differences in the cells can be attributed to the differential gene expression. Liver cells, whose functions include detoxification of blood, production of bile to metabolize fats, and synthesis of proteins essential for metabolism, must express a specific set of genes to perform their functions. Gene expression also varies with...
16.2K
02:34DNA Microarrays
20.6K
Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
20.6K