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相关概念视频

Regulation of Expression at Multiple Steps01:23

Regulation of Expression at Multiple Steps

947
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...
947
Cell Specific Gene Expression01:58

Cell Specific Gene Expression

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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...
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Regulation of Expression Occurs at Multiple Steps02:24

Regulation of Expression Occurs at Multiple Steps

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相关实验视频

Updated: Jul 25, 2025

Author Spotlight: An Integrated Workflow to Study the Promoter-Centric Spatio-Temporal Genome Architecture in Scarce Cell Populations
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Author Spotlight: An Integrated Workflow to Study the Promoter-Centric Spatio-Temporal Genome Architecture in Scarce Cell Populations

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澄清:从空间分辨的转录组学中精细化细胞与细胞相互作用和基因调控网络.

Mihir Bafna1, Hechen Li1, Xiuwei Zhang1

  • 1School of Computational Science and Engineering, College of Computing, Georgia Institute of Technology, Atlanta, GA, 30332, United States.

Bioinformatics (Oxford, England)
|June 30, 2023
PubMed
概括

使用空间转录基因数据,CLARIFY同时推断细胞与细胞相互作用 (CCI) 和基因调控网络 (GRN). 与现有方法相比,这种新的方法提高了GRN和CCI推断的准确性.

科学领域:

  • 计算生物学 计算生物学
  • 系统生物学 系统生物学
  • 基因组学就是基因组学.

背景情况:

  • 基因调节网络 (GRNs) 通过反循环控制细胞功能.
  • 细胞-细胞相互作用 (CCI) 也影响细胞行为,特别是在空间环境中.
  • 现有的方法经常将GRN和CCI单独推断出来,忽视了它们的相互依赖性.

研究的目的:

  • 为共同推断GRNs和CCIs开发一个统一的计算模型.
  • 利用空间转录基因数据进行更准确的生物网络分析.
  • 引入一个新的工具,CLARIFY,用于集成的GRN和CCI推理.

主要方法:

  • 清晰利用一个多层次的图形自动编码架构.
  • 该模型整合了空间解析的基因表达数据.
  • 它在推断CCI时提炼细胞特异性的GRNs.

主要成果:

  • 在真实和模拟数据集上推断GRN和CCI时,CLARIFY表现出卓越的性能.
  • 与推断GRN或CCI单独推断的方法相比,共同推断显著提高了准确性.
  • 该工具在seqFISH和MERFISH空间转录组数据上得到了验证.

更多相关视频

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection
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Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation
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Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation

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相关实验视频

Last Updated: Jul 25, 2025

Author Spotlight: An Integrated Workflow to Study the Promoter-Centric Spatio-Temporal Genome Architecture in Scarce Cell Populations
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Author Spotlight: An Integrated Workflow to Study the Promoter-Centric Spatio-Temporal Genome Architecture in Scarce Cell Populations

Published on: April 21, 2023

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Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection
09:19

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection

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Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation
12:54

Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation

Published on: March 7, 2018

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结论:

  • 同时推断GRNs和CCIs对于理解细胞系统至关重要.
  • 层状图形神经网络对于分析复杂的生物网络非常有效.
  • CLARIFY提供了一个强大的框架,用于从空间数据中推断集成网络.