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相关概念视频

Genome Annotation and Assembly03:36

Genome Annotation and Assembly

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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

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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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相关实验视频

Updated: Jan 8, 2026

Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine
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使用TIGRE从注释基因组中提取基因间区域的协议.

Breno Dupin1, Matheus Sanita Lima2, Alexandre Rossi Paschoal3

  • 1Department of Computer Science, Federal University of Technology-Parana, Cornelio Procopio, Paraná 86300-000, Brazil.

STAR protocols
|December 20, 2025
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概括
此摘要是机器生成的。

这项研究介绍了TIGRE (Tool for Intergenic Region Extraction),一种用于从基因组中提取基因间DNA序列的新协议. 该工具简化了数据准备,序列检索和文件合并用于基因组分析.

关键词:
生物信息学是一种生物信息学.计算机科学 计算机科学进化生物学是进化的生物学.基因组学就是基因组学.

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科学领域:

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

背景情况:

  • 基因间区域是关键的非编码DNA序列.
  • 这些区域的有效提取对于基因组研究至关重要.
  • 目前的方法可能缺乏对基因间区域分析的全面功能.

研究的目的:

  • 提出一种标准化的协议,用于从注释基因组中提取基因间区域.
  • 为了引入跨基因区域提取工具 (TIGRE) 软件.
  • 为了证明TIGRE在分析大规模基因组数据集中的实用性.

主要方法:

  • 开发和描述TIGRE协议用于本地安装和使用.
  • 使用TIGRE命令:"clean"用于数据准备",extract"用于序列检索",getfasta"用于核酸序列",combine"用于GFF3文件合并.
  • 该协议应用于1207个陆地植物线粒体基因组.

主要成果:

  • 使用TIGRE.成功实施了一种利用TIGRE.进行基因间区域提取的协议.
  • 证明TIGRE能够从大量的基因组集合中处理和提取序列的能力.
  • 从陆地植物线粒体基因组生成了基因间核酸序列.

结论:

  • 泰格提供了一个强大的和高效的解决方案,用于跨基因区域的提取.
  • 该协议有助于对非编码基因组元素的下游分析.
  • 这种工具有助于比较基因组学和进化研究,特别是植物线粒体.