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相关概念视频

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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What is Gene Expression?01:36

What is Gene Expression?

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A gene is a stretch of DNA that serves as the blueprint for functional RNAs and proteins. Since DNA is comprised  of nucleotides and proteins are comprised of amino acids, a mediator is required to convert the information encoded in DNA into proteins. This mediator is the messenger RNA (mRNA). mRNA copies the blueprint from DNA by a process called transcription. In eukaryotes, transcription occurs in the nucleus by complementary base-pairing with the DNA template. The mRNA is then...
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Regulation of Expression at Multiple Steps01:23

Regulation of Expression at Multiple Steps

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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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相关实验视频

Updated: Sep 13, 2025

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues
10:12

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

Published on: January 10, 2019

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时间共同表达:使用单细胞转录组学数据对动态基因共同表达模式的时间轨迹建模.

Shuyi Yang1, Anderson Bussing2, Giampiero Marra3

  • 1Department of Statistics, University of South Carolina, Columbia, USA. shuyi@email.sc.edu.

BMC bioinformatics
|July 30, 2025
PubMed
概括
此摘要是机器生成的。

在单细胞RNA测序 (scRNAseq) 数据中的TIME-CoExpress模型非线性基因协同表达动态. 这种方法捕捉了复杂的基因相互作用和细胞发育期间的表达变化,以获得更深入的生物学见解.

关键词:
协变量依赖的相关性结构.动态相关性 动态相关性非线性回归是一种非线性回归.假名时间 假名时间半参数回归研究单细胞RNA测序的一个细胞.零膨胀的双变数计数数据数据

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Temporal Ordering of Dynamic Expression Data from Detailed Spatial Expression Maps
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Temporal Ordering of Dynamic Expression Data from Detailed Spatial Expression Maps

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A Combinatorial Single-cell Approach to Characterize the Molecular and Immunophenotypic Heterogeneity of Human Stem and Progenitor Populations
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A Combinatorial Single-cell Approach to Characterize the Molecular and Immunophenotypic Heterogeneity of Human Stem and Progenitor Populations

Published on: October 25, 2018

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相关实验视频

Last Updated: Sep 13, 2025

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10:12

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

Published on: January 10, 2019

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Temporal Ordering of Dynamic Expression Data from Detailed Spatial Expression Maps
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A Combinatorial Single-cell Approach to Characterize the Molecular and Immunophenotypic Heterogeneity of Human Stem and Progenitor Populations
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A Combinatorial Single-cell Approach to Characterize the Molecular and Immunophenotypic Heterogeneity of Human Stem and Progenitor Populations

Published on: October 25, 2018

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科学领域:

  • 基因组学就是基因组学.
  • 计算生物学 计算生物学
  • 发展生物学 发展生物学

背景情况:

  • 单细胞RNA测序 (scRNAseq) 提供了高分辨率的转录组数据.
  • 传统的基因表达分析往往忽略了基因相互作用.
  • 现有的基因共同表达分析方法可能无法捕捉复杂的非线性关系.

研究的目的:

  • 开发一个灵活的框架来建模非线性基因共同表达动态.
  • 为了解决捕获复杂基因相互作用的现有方法的局限性.
  • 为scRNAseq数据提供更全面的分析,包括基因级特征.

主要方法:

  • 提出了一个基于copula的框架,命名为TIME-CoExpress.
  • 集成的数据驱动的光滑功能用于非线性建模.
  • 考虑到scRNAseq数据中常见的过度分散和零通胀.

主要成果:

  • TIME-CoExpress成功地模拟了沿着时间轨迹的基因共同表达的非线性变化.
  • 该框架捕捉了基因水平零通胀和平均表达的动态变化.
  • 在小鼠下垂体胚胎发育过程中确定了差异性共同表达的基因对.

结论:

  • 时代-CoExpress框架能够对scRNAseq数据中的动态,非线性变化进行可靠的识别.
  • 这种方法增强了对细胞发育过程中的基因调节和生物过程的理解.
  • 为整个发育过程中复杂的基因相互作用提供了更深入的见解.