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相关概念视频

Histone Modification02:32

Histone Modification

15.8K
The histone proteins have a flexible N-terminal tail extending out from the nucleosome. These histone tails are often subjected to post-translational modifications such as acetylation, methylation, phosphorylation, and ubiquitination. Particular combinations of these modifications form “histone codes” that influence the chromatin folding and tissue-specific gene expression.
Acetylation
The enzyme histone acetyltransferase adds acetyl group to the histones. Another enzyme, histone...
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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
Chromatin Modification in iPS Cells01:32

Chromatin Modification in iPS Cells

2.1K
Chromatin modification alters gene expression; therefore, scientists can add histone-modifying enzymes, histone variants, and chromatin remodeling complexes to somatic cells to aid reprogramming into pluripotent stem (iPS) cells.
Compact chromatin makes reprogramming difficult. Enzymes, such as histone demethylases and acetyltransferases, are often added during reprogramming to loosen the chromatin, making the DNA more accessible to transcription factors. Molecules that inhibit histone...
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相关实验视频

Updated: Jan 7, 2026

Automated Sample Preparation for the Multiplexed Analysis of Single-Cell Histone Post-Translational Modifications (sc-hPTM2)
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一个计算框架来剖析对单细胞质素修饰数据的归算策略.

Marta Moreno-González1,2, Jeroen de Ridder3, Jop Kind1,2

  • 1Oncode Institute, Hubrecht Institute-KNAW and University Medical Center Utrecht, 3584 CT, Utrecht, The Netherlands.

NAR genomics and bioinformatics
|December 31, 2025
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概括

这项研究对单细胞基因组后翻译修饰 (scHPTM) 数据进行了计算归算方法的基准测试. 研究结果显示,方法性能因任务而异,指导单细胞表观遗传学未来的算法开发.

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科学领域:

  • 表观遗传学和基因组学
  • 计算生物学 计算生物学
  • 单细胞分析的方法

背景情况:

  • 对基因组转化后修饰 (scHPTMs) 的单细胞分析对于理解表观遗传调节和细胞身份至关重要.
  • scHPTM数据集面临的分析挑战是由于读取深度低和固有的噪声.

研究的目的:

  • 引入第一个全面的计算框架来评估scHPTM数据上的归算策略.
  • 在scHPTM数据上评估原先针对单细胞RNA-seq (scRNA-seq) 和单细胞ATAC-seq (scATAC-seq) 开发的归算方法.

主要方法:

  • 开发了一个模块化的R包,实现了新的性能指标.
  • 评估了使用合成和公布scHPTM数据集的归算策略.
  • 评估信号恢复,基因组部位的丰富,以及细胞对细胞相似性的保存.

主要成果:

  • 对于 scHPTM 数据中的所有分析任务来说,没有一个归算方法是最佳的.
  • 在诸如信号消噪,峰值检测和集群等任务中,性能差异很大.
  • 确定了 scHPTM 数据当前归算方法的优点和局限性.

结论:

  • 该研究为单细胞表观遗传学研究人员和开发人员提供了关键指导.
  • 为 scHPTM 数据开发下一代任务意识的归算算法奠定了基础.
  • 突出了scHPTM数据集的计算分析中的未满足需求和当前能力.