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相关概念视频

Gene Evolution - Fast or Slow?02:05

Gene Evolution - Fast or Slow?

7.2K
The genomes of eukaryotes are punctuated by long stretches of sequence which do not code for proteins or RNAs. Although some of these regions do contain crucial regulatory sequences, the vast majority of this DNA serves no known function. Typically, these regions of the genome are the ones in which the fastest change, in evolutionary terms, is observed, because there is typically little to no selection pressure acting on these regions to preserve their sequences.
In contrast, regions which code...
7.2K
Transcription Attenuation in Prokaryotes02:42

Transcription Attenuation in Prokaryotes

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Transcriptional attenuation occurs when RNA transcription is prematurely terminated due to the formation of a terminator mRNA hairpin structure.  Bacteria use these hairpins to regulate the transcription process and control the synthesis of several amino acids including histidine, lysine, threonine, and phenylalanine. Transcription attenuation takes place in the non-coding regions of mRNA.
There are several different mechanisms used to attenuate transcription. In ribosome mediated...
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DNA Microarrays02:34

DNA Microarrays

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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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RNA-seq03:21

RNA-seq

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RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
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Transcription Elongation Factors02:35

Transcription Elongation Factors

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Cell Specific Gene Expression01:58

Cell Specific Gene Expression

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相关实验视频

Updated: Jul 20, 2025

Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine
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Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine

Published on: December 22, 2017

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通过使用单调表达的基因,PhyloVelo增强了转录基因速度场映射.

Kun Wang1,2, Liangzhen Hou1,3, Xin Wang1

  • 1CAS Key Laboratory of Quantitative Engineering Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, China.

Nature biotechnology
|July 31, 2023
PubMed
概括

PhyloVelo使用单调表达基因 (MEG) 准确追踪细胞命运过渡,以重建转录基因动态. 这种计算框架优于现有的方法,可以从单细胞RNA测序数据中推断复杂的血统轨迹.

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Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved Non-model Organisms
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Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved Non-model Organisms

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The Terroir Concept Interpreted through Grape Berry Metabolomics and Transcriptomics
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The Terroir Concept Interpreted through Grape Berry Metabolomics and Transcriptomics

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相关实验视频

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Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine
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Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine

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Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved Non-model Organisms
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The Terroir Concept Interpreted through Grape Berry Metabolomics and Transcriptomics
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科学领域:

  • 计算生物学是一种计算生物学.
  • 基因组学就是基因组学.
  • 发育生物学是发展生物学.

背景情况:

  • 单细胞RNA测序 (scRNA-seq) 可进行细胞分化研究.
  • 精确的细胞命运过渡跟踪仍然具有挑战性,特别是在疾病背景下.

研究的目的:

  • 介绍PhyloVelo,这是一个用于转录组动态的新型计算框架.
  • 使用scRNA-seq数据提高细胞命运过渡推断的准确性.

主要方法:

  • 菲洛维洛利用单调表达的基因 (MEG) 来估计转录速率.
  • 集成scRNA-seq数据与血统信息来重建速度场.
  • 使用模拟和Caenorhabditis elegans数据验证性能.

主要成果:

  • 菲洛维洛成功地恢复了线性,分叉和融合差异化轨迹.
  • 在七个数据集中推断复杂的血统轨迹方面表现出高准确性和稳定性.
  • 在血统追踪中优于现有的RNA速度方法.

结论:

  • PhyloVelo提供了一种强大的方法来分析转录基因动力学和细胞命运.
  • 通过PhyloVelo识别的MEG在跨物种的翻译和核糖体生物发生过程中具有共同的功能.