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相关概念视频

DNA Microarrays02:34

DNA Microarrays

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Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
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Genomics02:02

Genomics

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Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
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Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

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Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
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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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EXPRESSO:一个多层的数据库来探索多层的3D基因组组织.

Liuyang Cai1, Jun Qiao1, Ruixin Zhou1

  • 1Department of Pharmacology, Joint Laboratory of Guangdong-Hong Kong Universities for Vascular Homeostasis and Diseases, School of Medicine, Southern University of Science and Technology, Shenzhen 518055, China.

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概括

EXPRESSO数据库整合了多omics数据,以可视化人类组织的3D基因组组织和基因调节. 这一资源有助于研究人员了解基因组架构.

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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.
  • 生物信息学是一种生物信息学.

背景情况:

  • 三维 (3D) 基因组组织对于基因调节至关重要.
  • 了解3D基因组结构和基因表达之间的相互作用需要集成的多omics数据.

研究的目的:

  • 介绍EXPRESSO,一个新的多omics数据库,用于探索和可视化46个人类组织的3D基因组特征.
  • 为研究3D基因组架构和转录调节之间的关系提供一个全面的资源.

主要方法:

  • 从匹配的生物样本中整合了1360个3D基因组数据集 (Hi-C,HiChIP,ChIA-PET) 和842个1D基因组/转录基因组数据集 (ChIP-seq,ATAC-seq,RNA-seq).
  • 开发一个用户友好的界面,用于数据探索,可视化和下载.
  • 实现RESTful API用于程序访问和基于Web的应用程序,以将基因组特征与基因表达相关联.

主要成果:

  • EXPRESSO提供各种3D基因组特征类型,包括隔间,接触矩阵,域,条纹和色素环.
  • 该数据库提供先进的可视化工具和Web应用程序,用于探索多层3D基因组数据.
  • 通过RESTful API进行程序访问,可以进行高级数据检索和分析.

结论:

  • 埃克斯普雷索 (EXPRESSO) 作为一个重要的,自由可用的资源,供研究界深入了解3D基因组架构.
  • 该数据库有助于研究3D基因组组织对人类健康和疾病的影响.
  • 通过EXPRESSO,可以全面探索空间基因组组织和基因调节之间的关系.