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相关概念视频

Cis-regulatory Sequences02:02

Cis-regulatory Sequences

9.9K
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...
9.9K
RNA-seq03:21

RNA-seq

10.0K
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...
10.0K
Regulation of Expression at Multiple Steps01:23

Regulation of Expression at Multiple Steps

917
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...
917
Regulation of Expression Occurs at Multiple Steps02:24

Regulation of Expression Occurs at Multiple Steps

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3.1K
Master Transcription Regulators02:23

Master Transcription Regulators

6.9K
Master transcription regulators are regulatory proteins that are predominantly responsible for regulating the expression of multiple genes. Often these genes work in concert to drive a  complex process. Activation of a master transcription regulator can lead to a cascade of transcriptional activation necessary for that outcome. These regulators can directly bind to the regulatory sequences of the various genes involved, or they can indirectly regulate transcription by binding to regulatory...
6.9K
Ribosome Profiling02:24

Ribosome Profiling

3.5K
Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
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相关实验视频

Updated: Jul 9, 2025

High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture 4C-seq
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MAE-seq 完善了整个基因组的监管元素.

Xiusheng Zhu1, Qitong Huang1,2, Lei Huang1

  • 1Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Livestock and Poultry Multi-omics of MARA, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China.

Nucleic acids research
|December 1, 2023
PubMed
概括

我们开发了MAE-seq以识别25bp分辨率的功能性监管元素 (RE). 这种方法精确地绘制增强剂,揭示新元素,并改善基因调节研究的基因组注释.

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Multiplexed Analysis of Retinal Gene Expression and Chromatin Accessibility Using scRNA-Seq and scATAC-Seq
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3' End Sequencing Library Preparation with A-seq2
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相关实验视频

Last Updated: Jul 9, 2025

High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture 4C-seq
09:06

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Multiplexed Analysis of Retinal Gene Expression and Chromatin Accessibility Using scRNA-Seq and scATAC-Seq
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科学领域:

  • 基因组学和分子生物学
  • 表观遗传学和基因调控

背景情况:

  • 精确的细胞命运决定需要准确识别调节元件 (RE) 和它们与基因的相互作用.
  • 目前定义RE的方法缺乏分辨率,导致序列冗余和基因组环境中的模两可.

研究的目的:

  • 开发和验证一种高分辨率的方法,以实验性地识别25bp级的功能RE.
  • 描述新型增强剂及其在不同细胞类型的基因调节中的作用.

主要方法:

  • MAE-seq (大规模活性增强剂通过测序) 开发用于识别25bp分辨率的功能RE.
  • MAE-seq被应用于小鼠胚胎干细胞 (mESC),C2C12和HEK 293T细胞,分析了数万亿个DNA片段和数十亿个细胞.
  • 高分辨率的Hi-C数据和CRISPR-Cas9技术被整合用于功能验证.

主要成果:

  • MAE-seq在研究的细胞类型中确定了数十万个25-bp增强剂,其中mESCs中有626,879个.
  • 确定的增强剂中很大一部分 (33.85%) 是新型,缺乏先前的表观遗传修饰.
  • 这些25-bp元素作为单元起作用,调节基因表达类似于较大的元素,并使超级增强剂的精确注释成为可能.
  • 超过55%的新元素显示与目标基因的远程相互作用,功能验证证实它们在基因表达和细胞增殖中的作用.

结论:

  • MAE-seq为识别和注释功能性监管元素提供了前所未有的分辨率.
  • 该方法揭示了新的增强剂及其调节作用,进步了我们对基因组组织和基因控制的理解.
  • 这种方法提高了基因组注释的精度,并为探索基因组景观及其监管机制开辟了新的途径.