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Cis-regulatory Sequences

Cis-regulatory Sequences

Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...

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Updated: Jun 3, 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

识别特定于细胞类型的空间变异基因与ctSVGG.

Haotian Zhuang¹, Xinyi Shang², Wenpin Hou²

¹Department of Biostatistics and Bioinformatics, Duke University School of Medicine, Durham, NC, USA.

Research square

|January 7, 2025

概括

此摘要是机器生成的。

我们开发了ctSVG,这是一种分析空间转录组学数据的新方法. 它识别了细胞类型特定的空间变量基因 (SVGs),这些基因揭示了新的生物功能.

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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

Cell Lineage Analyses and Gene Function Studies Using Twin-spot MARCM

Cell Lineage Analyses and Gene Function Studies Using Twin-spot MARCM

Published on: March 2, 2017

相关实验视频

Last Updated: Jun 3, 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

Cell Lineage Analyses and Gene Function Studies Using Twin-spot MARCM

Cell Lineage Analyses and Gene Function Studies Using Twin-spot MARCM

Published on: March 2, 2017

科学领域:

基因组学就是基因组学.
计算生物学计算生物学
分子生物学分子生物学

背景情况:

空间变量基因 (SVGs) 对于理解组织异质性至关重要.
现有的SVG识别方法经常忽略空间信息,导致与细胞类型标记器重叠.

研究的目的:

开发一种计算方法,ctSVG,用于从Visium HD空间转录学数据中识别细胞类型特定的SVG.
利用单细胞分辨率的空间数据来发现新的基因和功能.

主要方法:

开发了ctSVG,这是一个针对Visium HD空间转录学量身定制的计算方法.
实现了对Visium方块的单元分配,并识别了特定于单元类型的SVG.
将ctSVG识别的SVG与样本范围SVG和已知的细胞类型标记器进行比较.

主要成果:

ctSVG准确地将Visium方块分配给单个单元格.
识别了与以前识别的基因不重叠的特定细胞类型的SVG.
这些新的SVG突出显示了特定空间区域内的重要生物功能.

结论:

ctSVG有效地利用空间转录学数据来揭示细胞类型特定的分子签名.
该方法揭示了新基因和传统方法遗漏的生物见解.
ctSVG提高了对组织异质性和空间生物学的理解.