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相关概念视频

Genomics02:02

Genomics

36.2K
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...
36.2K
Genome Annotation and Assembly03:36

Genome Annotation and Assembly

18.8K
The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
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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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Lampbrush Chromosomes01:51

Lampbrush Chromosomes

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Genetic Screens02:46

Genetic Screens

4.9K
Genetic screens are tools used to identify genes and mutations responsible for phenotypes of interest. Genetic screens help identify individuals or a group of people at risk of developing  genetic diseases and help them with early intervention, targeted therapy, and reproductive options.
Forward genetic screens
Forward or “classical” genetic screens involve creating random mutations in an organism’s DNA using radiation, mutagens, or insertion of additional bases, which...
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Sanger Sequencing01:57

Sanger Sequencing

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DNA sequencing is a fundamental technique that is routinely used in the biological sciences. This method can be applied to a range of questions at different scales - from the sequencing of a cloned DNA fragment or the study of a mutation in a gene up to whole-genome sequencing. However, despite the widespread use of sequencing today, it was not until 1977 that Fredrick Sanger and his collaborators developed the chain-termination method to decode DNA sequences. It relies on the separation of a...
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相关实验视频

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Genome-wide Snapshot of Chromatin Regulators and States in Xenopus Embryos by ChIP-Seq
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Genome-wide Snapshot of Chromatin Regulators and States in Xenopus Embryos by ChIP-Seq

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设置JBrowse 2基因组浏览器

Colin Diesh1, Robert Buels1, Garrett Stevens1

  • 1Department of Bioengineering, University of California, Berkeley, California.

Current protocols
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概括

这个协议详细说明了在Ubuntu服务器上设置JBrowse 2,一个基于Web的基因组浏览器. 它引导用户通过加载基因组数据,使生物信息在线可访问可视化.

关键词:
在JBrowse中使用JBrowse.进行比较的基因组学.数据可视化数据可视化基因注释 基因注释基因组浏览器 基因组浏览器这是下一代测序.

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Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations
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A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes
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相关实验视频

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科学领域:

  • 生物信息学是一种生物信息学.
  • 计算生物学 计算生物学
  • 基因组学就是基因组学.

背景情况:

  • JBrowse 2是一个多功能,模块化的基因组浏览器,旨在用于Web部署.
  • 它支持各种基因组文件格式,非常适合在线基因组数据资源.
  • 有效的可视化工具对于解释复杂的基因组数据集至关重要.

研究的目的:

  • 为在Ubuntu Linux网络服务器上安装和配置JBrowse 2提供一个全面的协议.
  • 为了展示从FASTA文件加载参考基因组的过程.
  • 为了说明将GFF3文件中的基因注释数据添加到JBrowse 2实例中.

主要方法:

  • 在Ubuntu Linux环境上安装JBrowse 2.
  • 为 JBrowse 2 可访问性配置网络服务器.
  • 使用FASTA文件加载参考基因组数据.
  • 通过GFF3文件整合基因注释轨迹.

主要成果:

  • 一个通过Web浏览器访问的功能JBrowse 2实例.
  • 一个参考基因组的成功可视化.
  • 在基因组序列上叠加的基因注释的显示.
  • 一个可部署的解决方案,用于基于Web的基因组数据呈现.

结论:

  • 该协议成功实现了 JBrowse 2 网络服务器实例的设置.
  • 用户可以轻松部署JBrowse 2以在他们的网站上可视化基因组数据.
  • 这有助于在各种研究环境中共享和探索基因组信息.