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相关概念视频

Cell Specific Gene Expression01:58

Cell Specific Gene Expression

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Constitutive and Regulated Gene Expression01:27

Constitutive and Regulated Gene Expression

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Gene expression in prokaryotes is governed by constitutive and regulated systems, allowing cells to balance the production of essential proteins with adaptive responses to environmental changes.Constitutive Gene ExpressionConstitutive, or housekeeping, genes are continuously expressed as they encode proteins vital for fundamental cellular processes. These include enzymes for glycolysis, ribosomal components for protein synthesis, and proteins involved in DNA replication. Their constant...
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Regulation of Expression at Multiple Steps01:23

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The gene expression in cells is regulated at different stages: (i) transcription, (ii) RNA processing, (iii) RNA localization, and (iv) translation. Transcriptional regulation is mediated by regulatory proteins such as transcription factors, activators, or repressors—these control gene expression by initiating or inhibiting the transcription of genes. Once a precursor or pre-mRNA is produced, it undergoes post-transcriptional modification, including 5' capping, splicing, and the...
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Gene expression can be regulated at almost every step from gene to protein. Transcription is the step that is most commonly regulated. This involves the binding of proteins to short regulatory sequences on the DNA. This association can either promote or inhibit the transcription of a gene associated with the respective sequence.
Transcription results in the generation of precursor (pre-mRNA) that consists of both exons and introns, which needs further processing before being translated to a...
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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...
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相关实验视频

Updated: Jul 16, 2025

Transcriptome Analysis of Single Cells
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scGEM:在单细胞转录组数据中揭示了嵌套树结构基因共同表达模块.

Han Zhang1, Xinghua Lu1,2, Binfeng Lu3

  • 1Department of Biomedical Informatics, University of Pittsburgh, Pittsburgh, PA 15206, USA.

Cancers
|September 9, 2023
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概括
此摘要是机器生成的。

我们开发了scGEM,一种新的贝叶斯模型,用于识别单细胞RNA测序数据中揭示细胞功能的基因共同表达模块 (GEM). 这种方法增强了对细胞专业化和分化的理解.

关键词:
蜂程序是一个蜂程序.基因共表达模块的基因共表达模块嵌套树木结构 嵌套树木结构单细胞转录组 (transcriptome) 是一个单细胞转录组.主题模型 主题模型 主题模型

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科学领域:

  • 计算生物学 计算生物学
  • 基因组学就是基因组学.
  • 分子生物学分子生物学

背景情况:

  • 单细胞转录组分析提供了对细胞异质性的高分辨率见解.
  • 目前的方法很难识别和量化驱动细胞专业化和分化的细胞程序.

研究的目的:

  • 介绍scGEM,这是一个贝叶斯模型,用于在单细胞中揭示基因共同表达模块 (GEM).
  • 量化细胞特化和分化背后的细胞程序.

主要方法:

  • 开发了scGEM,一个嵌套树结构的非参数贝叶斯模型.
  • 将scGEM应用于来自外周血液单核细胞和早期大脑发育的单细胞数据集.
  • 通过模拟和大量RNA-seq数据与现有方法对比,验证了scGEM性能.

主要成果:

  • scGEM有效地发现了跨不同细胞类型的共享和专业的转录组信号.
  • 在模拟数据上的困难度和主题连贯性方面,scGEM显著超过了其他方法.
  • 来自scGEM的GEM与癌细胞中淋巴细胞透和细胞循环等生物过程的相关性更强.

结论:

  • scGEM通过识别单细胞中的转录组程序来模拟隐藏的细胞功能.
  • 该模型阐明了跨不同细胞类型的转录组程序的专业化和泛化.
  • scGEM为剖析细胞异质性和功能提供了一个强大的工具.