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相关概念视频

Transcription Factors02:16

Transcription Factors

75.6K
Tissue-specific transcription factors contribute to diverse cellular functions in mammals. For example, the gene for beta globin, a major component of hemoglobin, is present in all cells of the body. However, it is only expressed in red blood cells because the transcription factors that can bind to the promoter sequences of the beta globin gene are only expressed in these cells. Tissue-specific transcription factors also ensure that mutations in these factors may impair only the function of...
75.6K
General Transcription Factors01:30

General Transcription Factors

5.2K
Tissue-specific transcription factors contribute to diverse cellular functions in mammals. For example, the gene for beta globin, a major component of hemoglobin, is present in all cells of the body. However, it is only expressed in red blood cells because the transcription factors that can bind to the promoter sequences of the beta globin gene are only expressed in these cells. Tissue-specific transcription factors also ensure that mutations in these factors may impair only the function of...
5.2K
Conserved Binding Sites01:49

Conserved Binding Sites

4.2K
Many proteins’ biological role depends on their interactions with their ligands, small molecules that bind to specific locations on the protein known as ligand-binding sites. Ligand-binding sites are often conserved among homologous proteins as these sites are critical for protein function.
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally...
4.2K
Cooperative Binding of Transcription Regulators02:13

Cooperative Binding of Transcription Regulators

6.3K
Transcriptional regulators bind to specific cis-regulatory sequences in the DNA to regulate gene transcription. These cis-regulatory sequences are very short, usually less than ten nucleotide pairs in length. The short length means that there is a high probability of the exact same sequence randomly occurring throughout the genome.  Since regulators can also bind to groups of similar sequences, this further increases the chances of random binding. Transcriptional regulators form...
6.3K
Transcription Initiation01:47

Transcription Initiation

16.2K
Initiation is the first step of transcription in eukaryotes. Prokaryotic RNA Polymerase (RNAP) can bind to the template DNA and start transcribing. On the other hand, transcription in eukaryotes requires additional proteins, called transcription factors, to first bind to the promoter region in the DNA template. This binding helps recruit the specific RNAP that can assemble on the DNA and start transcription.
The promoters and enhancers and their accessory proteins allow tight regulation of...
16.2K
Transcription Elongation Factors02:35

Transcription Elongation Factors

3.3K
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相关实验视频

Updated: May 31, 2025

High Sensitivity Measurement of Transcription Factor-DNA Binding Affinities by Competitive Titration Using Fluorescence Microscopy
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TFinder:用于预测转录因子绑定网站的Python网络工具.

Julien Minniti1, Frédéric Checler1, Eric Duplan1

  • 1University Côte d'Azur, INSERM, CNRS, Institut de Pharmacologie Moléculaire et Cellulaire, "Laboratory of Excellence (LABEX) Distalz", Valbonne, France.

Journal of molecular biology
|January 22, 2025
PubMed
概括
此摘要是机器生成的。

TFinder是一个Python网络门户,可以在多种物种的基因调节区域中识别个别动机,如转录因子结合点. 这个工具简化了对缺乏广泛生物信息学经验的研究人员的动机发现.

关键词:
预测 预测 预测 预测活动主办人 活动主办人软件 软件 软件 软件 软件转录因子的结合点是转录因子的结合点.

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PAR-CliP - A Method to Identify Transcriptome-wide the Binding Sites of RNA Binding Proteins
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相关实验视频

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Identifying Transcription Factor Olig2 Genomic Binding Sites in Acutely Purified PDGFRα+ Cells by Low-cell Chromatin Immunoprecipitation Sequencing Analysis
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Identifying Transcription Factor Olig2 Genomic Binding Sites in Acutely Purified PDGFRα+ Cells by Low-cell Chromatin Immunoprecipitation Sequencing Analysis

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PAR-CliP - A Method to Identify Transcriptome-wide the Binding Sites of RNA Binding Proteins
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科学领域:

  • 分子生物学分子生物学
  • 生物信息学是一种生物信息学.
  • 基因组学就是基因组学.

背景情况:

  • 转录是调节基因表达的基本细胞过程.
  • 转录因子结合位点 (TFBS) 对于特定的DNA结合和基因调节至关重要.
  • 识别TFBS对于理解基因控制机制至关重要.

研究的目的:

  • 开发一个直观的,全合一的网络门户网站,用于识别个别图案 (IM) 和TFBS.
  • 为了促进多种物种的基因调节序列的检索.
  • 为了使 de novo生成和利用位置重量矩阵 (PWM) 进行图案分析.

主要方法:

  • 使用NCBI API根据基因名称或ID.提取促进子和终端调节区域.
  • 使用IUPAC代码和JASPAR条目搜索IM.
  • 支持新的PWM生成和现有PWM的使用.
  • 同时对五种物种的数据进行无限基因分析.

主要成果:

  • TFinder以表格和图形格式提供已识别的图案,包括P值和与转录起始地点 (TSS) 或终端区域相对的位置.
  • 结果通过电子邮件发送给用户,方便数据分析和共享.
  • 该工具以GitHub上的Python包和Streamlit网络应用程序的形式免费提供.

结论:

  • TFinder提供了一个用户友好的解决方案,用于识别基因调节元素和转录因子结合位.
  • 它使研究人员,包括那些对生物信息学新手,能够在多种物种中进行复杂的分析.
  • 该工具提高了对图案发现的可访问性,有助于随后的数据分析和研究.