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相关概念视频

Eukaryotic Compartmentalization01:46

Eukaryotic Compartmentalization

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One of the distinguishing features of eukaryotic cells is that they contain membrane-bound organelles, such as the nucleus and mitochondria, that carry out specialized functions. Since biological membranes are only selectively permeable to solutes, they help create a compartment with controlled conditions inside an organelle. These microenvironments are tailored to the organelle's specific functions and help isolate them from the surrounding cytosol.
For example, lysosomes in the animal cells...
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Chromatin Packaging01:32

Chromatin Packaging

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Each human somatic cell contains 6 billion base pairs of DNA. Each base pair is 0.34 nm long, meaning each diploid cell contains a staggering 2 meters of DNA. This long DNA strand is packed inside a nucleus measuring only 10-20 microns in diameter with the help of specialized DNA-binding proteins called histones. Together they form a compact DNA-protein complex called chromatin. The chromatin is further compacted into higher-order structures. The highest level of compaction is achieved during...
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Subcellular Fractionation01:32

Subcellular Fractionation

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The homogenate obtained after cell lysis contains various membrane-bound organelles that can be further separated into pure fractions by subcellular fractionation. These isolates are used to study specific cellular components, analyze localized protein activity, and are even employed in diagnostics. Fractionation is typically achieved using centrifugation methods, the most common being density-gradient and differential centrifugation.
Differential Centrifugation
Differential centrifugation is...
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Genomic DNA in Prokaryotes00:46

Genomic DNA in Prokaryotes

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The genome of most prokaryotic organisms consists of double-stranded DNA organized into one circular chromosome in a region of cytoplasm called the nucleoid. The chromosome is tightly wound, or supercoiled, for efficient storage. Prokaryotes also contain other circular pieces of DNA called plasmids. These plasmids are smaller than the chromosome and often carry genes that confer adaptive functions, such as antibiotic resistance.
Genomic Diversity in Bacteria
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Comparing Mitochondrial, Chloroplast, and Prokaryotic Genomes02:16

Comparing Mitochondrial, Chloroplast, and Prokaryotic Genomes

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The present-day mitochondrial and chloroplast genomes have retained some of the characteristics of their ancestral prokaryotes and also have acquired new attributes during their evolution within eukaryotic cells. Like prokaryotic genomes, mitochondrial and chloroplast genomes neither bind with histone-like proteins nor show complex packaging into chromosome-like structures, as observed in eukaryotes. Unlike mitotic cell divisions observed in eukaryotic cells, mitochondria and chloroplasts...
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Genomic DNA in Eukaryotes00:58

Genomic DNA in Eukaryotes

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Eukaryotes have large genomes compared to prokaryotes. To fit their genomes into a cell, eukaryotic DNA is packaged extraordinarily tightly inside the nucleus. To achieve this, DNA is tightly wound around proteins called histones, which are packaged into nucleosomes that are joined by linker DNA and coil into chromatin fibers. Additional fibrous proteins further compact the chromatin, which is recognizable as chromosomes during certain phases of cell division.
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相关实验视频

Updated: Jun 29, 2025

Deciphering High-Resolution 3D Chromatin Organization via Capture Hi-C
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scGHOST:识别单细胞的3D基因组分组.

Kyle Xiong1, Ruochi Zhang1,2, Jian Ma3

  • 1Ray and Stephanie Lane Computational Biology Department, School of Computer Science, Carnegie Mellon University, Pittsburgh, PA, USA.

Nature methods
|April 8, 2024
PubMed
概括

scGHOST注释了单细胞3D基因组分组,揭示了细胞对细胞在核组织中的变异性. 这种方法提供了对基因转录和在各种生物环境中的功能影响的见解.

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Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.
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科学领域:

  • 基因组学就是基因组学.
  • 表观遗传学 在表观遗传学中,表观遗传学是指表观遗传学.
  • 计算生物学 计算生物学

背景情况:

  • 单细胞Hi-C (scHi-C) 可以分析3D基因组组织变异性.
  • 现有的计算方法可以识别诸如分区和循环之类的特征,但不能识别分区.
  • 标注单细胞分组对于理解染色体空间组织至关重要.

研究的目的:

  • 开发一种用于注释单细胞3D基因组子组的计算方法.
  • 为了使细胞对细胞的变异性在核架构中的研究.
  • 将单细胞子组与基因转录和功能基因组学联系起来.

主要方法:

  • scGHOST使用图形嵌入与受约束的随机步行采样.
  • 该方法应用于scHi-C数据和3D基因组成像接触地图.
  • 分析包括识别特定于细胞类型和特定于等位基的子组.

主要成果:

  • scGHOST可靠地从scHi-C数据中识别单细胞子组件.
  • 该方法揭示了核子分区组织中的细胞对细胞的变异性.
  • scGHOST将子区域与各种细胞类型和发育阶段的基因转录联系起来.

结论:

  • scGHOST是一个有效的工具,用于单细胞3D基因组分区注释.
  • 这些发现突显了单细胞子组的功能意义.
  • 这种方法促进了对核组织异质性的理解.