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Regulated mRNA Transport

Regulated mRNA Transport

In eukaryotes, transcription and translation are compartmentalized; an mRNA is first synthesized in the nucleus and then selectively transported to the cytoplasm for protein synthesis. Before transport, a pre-mRNA undergoes several steps of post-transcriptional modifications including splicing, 5' capping, and the addition of a poly-adenine tail. Various proteins bind to the pre-mRNA during these modifications. The mRNA transport takes place with the help of multiple proteins playing...

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Updated: Jul 11, 2025

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

Published on: January 10, 2019

隐藏的马尔科夫随机场模型用于空间解析的转录组学的细胞类型赋值.

Cheng Zhong¹, Tian Tian², Zhi Wei¹

¹Department of Computer Science, Ying Wu College of Computing, New Jersey Institute of Technology, Newark, NJ 07102, United States.

Bioinformatics (Oxford, England)

|November 9, 2023

概括

我们开发了SPAN,这是空间转录组学 (SRT) 数据中细胞类型注释的新方法. SPAN有效地使用标记基因和空间信息来改善SRT数据集中的细胞类型识别.

科学领域:

基因组学就是基因组学.
计算生物学计算生物学
生物信息学是一种生物信息学.

背景情况:

空间解析转录学 (SRT) 能够在空间上下文中进行基因表达分析.
目前用于SRT的单元格注释方法通常使用无监督的集群或忽略空间信息.
现有的方法无法同时有效利用标记基因信息和空间背景.

研究的目的:

引入SPAN,这是SRT数据中细胞类型注释的新型统计模型.
将标记基因的先前知识与空间信息相结合,以便准确地分配细胞.
解决现有的无监督和非空间单元格注释方法的局限性.

主要方法:

开发了SPAN,这是一个统计空间转录组学细胞分配模型.
利用预定义的过度表达的标记基因用于细胞注释.
将混合模型与隐藏的马尔科夫随机场结合起来,以捕捉邻近点之间的空间依赖.

主要成果:

通过整合标记基因和空间信息,SPAN有效地在SRT数据中注释细胞类型.
与空间和非空间聚类算法相比,SPAN的表现优越.
通过广泛的模拟和现实世界的SRT数据实验验验证了SPAN的有效性.

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Isolation and Profiling of Human Primary Mesenteric Arterial Endothelial Cells at the Transcriptome Level

Published on: March 14, 2022

Method for Labeling Transcripts in Individual Escherichia coli Cells for Single-molecule Fluorescence In Situ Hybridization Experiments

Method for Labeling Transcripts in Individual Escherichia coli Cells for Single-molecule Fluorescence In Situ Hybridization Experiments

Published on: December 21, 2017

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Last Updated: Jul 11, 2025

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

Published on: January 10, 2019

Isolation and Profiling of Human Primary Mesenteric Arterial Endothelial Cells at the Transcriptome Level

Isolation and Profiling of Human Primary Mesenteric Arterial Endothelial Cells at the Transcriptome Level

Published on: March 14, 2022

Method for Labeling Transcripts in Individual Escherichia coli Cells for Single-molecule Fluorescence In Situ Hybridization Experiments

Method for Labeling Transcripts in Individual Escherichia coli Cells for Single-molecule Fluorescence In Situ Hybridization Experiments

Published on: December 21, 2017

结论:

在空间转录学中,SPAN为细胞类型注释提供了有效的解决方案.
该模型利用标记基因和空间背景的能力提供了显著的优势.
通过提高细胞类型识别准确度,SPAN增强了SRT数据的下游分析.