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相关概念视频

Chromatin Immunoprecipitation- ChIP02:36

Chromatin Immunoprecipitation- ChIP

12.1K
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...
12.1K
Euchromatin01:01

Euchromatin

8.8K
The extent of chromatin compaction can be studied by staining chromatin using specific DNA binding dyes. Under the microscope, the dense-compacted regions take up more dye, appearing darker, while the less-compact areas take up less dye and appear lighter. Based on the compaction level, chromatins are classified into two primary forms – euchromatin and heterochromatin.
Euchromatin is the less dense region of the chromatin and stains lighter. Euchromatin contains histone H3 extensively...
8.8K
Heterochromatin02:38

Heterochromatin

17.8K
The extent of chromatin compaction can be studied by staining chromatin using specific DNA binding dyes. Under the microscope, the dense-compacted regions that take up more dye are called heterochromatin. Heterochromatin is further classified into two forms – constitutive heterochromatin and facultative heterochromatin.
Constitutive heterochromatin: It is a highly compact region of chromatin that is mostly concentrated in the centromere and telomere. Unlike euchromatin, the amino acid at...
17.8K
Duplication of Chromatin Structure02:05

Duplication of Chromatin Structure

7.2K
The process of chromosome duplication during cell division requires genome-wide disruption and re-assembly of chromatin. The chromatin structure must be accurately inherited, reassembled, and maintained in the daughter cells to ensure lineage propagation.
The basic unit of the chromatin is the nucleosome, consisting of DNA wrapped around octameric histone proteins and short stretches of linker DNA separating individual nucleosomes. The histone proteins within the nucleosome have their...
7.2K

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相关实验视频

Updated: Jan 13, 2026

Generation of Native Chromatin Immunoprecipitation Sequencing Libraries for Nucleosome Density Analysis
10:05

Generation of Native Chromatin Immunoprecipitation Sequencing Libraries for Nucleosome Density Analysis

Published on: December 12, 2017

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iceDP:通过密度峰值聚类算法识别染色体间的交互.

Ruhai Chen1, Jiekai Chen2, Lingling Shi1,3,4

  • 1Key Laboratory of CNS Regeneration (Ministry of Education), Guangdong Key Laboratory of Non-Human Primate Research, Guangdong-Hong Kong-Macau Institute of CNS Regeneration, Department of Chemistry, Jinan University, No. 601, Huangpu Avenue West, Guangzhou, Guangdong 510632, China.

Briefings in bioinformatics
|January 7, 2026
PubMed
概括

我们开发了iceDP,这是一个新的计算工具,用于使用密度峰集群识别非同类染色体间接触 (NHCCs). iceDP精确检测已知的NHCC并发现新的,优于现有方法.

关键词:
密度峰值是密度峰值的时间.这就是hi-C.不同类的染色体间接触.

更多相关视频

Isolation and Cultivation of Neural Progenitors Followed by Chromatin-Immunoprecipitation of Histone 3 Lysine 79 Dimethylation Mark
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Isolation and Cultivation of Neural Progenitors Followed by Chromatin-Immunoprecipitation of Histone 3 Lysine 79 Dimethylation Mark

Published on: January 26, 2018

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Deciphering High-Resolution 3D Chromatin Organization via Capture Hi-C
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Deciphering High-Resolution 3D Chromatin Organization via Capture Hi-C

Published on: October 14, 2022

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相关实验视频

Last Updated: Jan 13, 2026

Generation of Native Chromatin Immunoprecipitation Sequencing Libraries for Nucleosome Density Analysis
10:05

Generation of Native Chromatin Immunoprecipitation Sequencing Libraries for Nucleosome Density Analysis

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Isolation and Cultivation of Neural Progenitors Followed by Chromatin-Immunoprecipitation of Histone 3 Lysine 79 Dimethylation Mark
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Isolation and Cultivation of Neural Progenitors Followed by Chromatin-Immunoprecipitation of Histone 3 Lysine 79 Dimethylation Mark

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Deciphering High-Resolution 3D Chromatin Organization via Capture Hi-C
09:32

Deciphering High-Resolution 3D Chromatin Organization via Capture Hi-C

Published on: October 14, 2022

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科学领域:

  • 基因组学和生物信息学
  • 分子生物学分子生物学
  • 计算生物学 计算生物学

背景情况:

  • 染色体的3D结构对于基因调节至关重要.
  • 高C技术揭示了染色体组织,但缺乏识别非同类染色体间接触 (NHCC) 的工具.
  • NHCC对于染色体区域和基因调控都很重要.

研究的目的:

  • 开发一个专门的计算工具,iceDP,用于识别NHCCs.
  • 根据现有方法和各种数据集验证iceDP的性能.
  • 探索iceDP在发现新生物相关NHCC中的实用性.

主要方法:

  • 利用密度峰集群算法在染色体间数据中识别高密度区域.
  • 实施了两个过步骤来删除假阳性.
  • 将iceDP应用于来自不同细胞类型的三个Hi-C数据集.

主要成果:

  • iceDP成功识别了已知的NHCCs,包括嗅觉受体基因和Polycomb调节基因.
  • 该工具发现了以前未报告的转录活性NHCCs.
  • 与diffHiC和FitHiC相比,iceDP表现出优异的性能,实现了更高的阳性率.

结论:

  • 冰DP是一种有效和多功能工具,用于从各种染色体构造捕获数据中识别NHCC.
  • 该工具增强了对3D基因组组织及其在基因调节中的作用的研究.
  • iceDP与多种技术 (Hi-C,Micro-C,HiChIP,BL-HiC) 的兼容性扩大了其在基因组研究中的适用性.