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相关概念视频

Chromatin Immunoprecipitation- ChIP02:36

Chromatin Immunoprecipitation- ChIP

11.1K
Chromatin immunoprecipitation, or ChIP, is an antibody-based technique used to identify sites on DNA that bind to transcription factors of interest or histone proteins. It also helps determine the type of histone modifications such as acetylation, phosphorylation, or methylation.
Types of ChIP
ChIP can be divided into two types - X-ChIP and N-ChIP. X-ChIP involves in vivo cross-linking of histones and regulatory proteins to DNA, fragmenting the DNA by sonication, and isolating the protein-DNA...
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Transcription Factors02:16

Transcription Factors

75.8K
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...
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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...
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Cooperative Binding of Transcription Regulators02:13

Cooperative Binding of Transcription Regulators

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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...
6.4K
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...
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相关实验视频

Updated: Jun 25, 2025

Mapping the Structure-Function Relationships of Disordered Oncogenic Transcription Factors Using Transcriptomic Analysis
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Mapping the Structure-Function Relationships of Disordered Oncogenic Transcription Factors Using Transcriptomic Analysis

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对转录因子优先级的基准测试工具.

Leonor Schubert Santana1, Alejandro Reyes1, Sebastian Hoersch1

  • 1Novartis Biomedical Research, Basel, Switzerland.

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|May 31, 2024
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概括

识别转录因子 (TFs) 驱动基因表达对于药物发现至关重要. 这项研究使用染色体分析数据评估了TF预测工具,提名了三个领先者:RcisTarget,MEIRLOP和monaLisa.

关键词:
ATAC-seqq 的使用情况.一个基准的基准.在 ChIP-seqq.染色是一种染色素.H3K27ac 在线阅读动机丰富方式在PWM中使用PWM.监管地区是监管区域.转录因子是一种转录因子.

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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节
  • 计算生物学和生物信息学

背景情况:

  • 基因表达是通过转录因子 (TF) 与调节元素结合的空间时间调节.
  • 基因组乙化 (H3K27ac) 标志着活跃的调节区域,可通过ChIP-seq.检测.
  • 对于TF与DNA序列结合的预测工具已经存在,但它们在现实场景中的性能需要评估.

研究的目的:

  • 评估现有的TF预测工具的性能.
  • 识别TF的驱动基因表达程序,以识别潜在的药物标.
  • 根据染色体分析数据提名优质的TF优先级工具.

主要方法:

  • 策划了84个H3K27ac ChIP-seq实验与TF扰动 (淘汰赛/过度表达).
  • 在这些数据集中应用了9个已发布的TF预测工具.
  • 评估工具在识别扰乱的TF时的性能.

主要成果:

  • 提名了RcisTarget,MEIRLOP和monaLisa作为领先的TF优先级工具.
  • 在评估的工具中确定了共同点和改进领域.
  • 证明了现实世界染色体分析数据对工具基准测试的有用性.

结论:

  • 在基因调节研究中,RcisTarget,MEIRLOP和monaLisa显示了TF优先级的前景.
  • 该研究为开发改进的TF绑定预测工具提供了见解.
  • 准确的TF识别对于了解疾病机制和开发向治疗至关重要.