GeneFamily:一个全面的哺乳动物基因家族数据库,具有广泛的注释和交互式可视化
Yinan Wang1,2, Yuanzheng Zhang3,4, Xueying Wang3,4
1Institutes for Systems Genetics, West China Hospital, Sichuan University, 24 South Section 1, Yihuan Road, Chengdu 610065, China.
Nucleic acids research
|November 18, 2025
概括
GeneFamily是一个新的数据库,为研究人员简化哺乳动物基因家族分析. 它提供交互式工具,用于探索基因进化和比较基因组学,而不需要先进的生物信息学技能.
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.
- 进化生物学 进化生物学
背景情况:
- 基因家族对于遗传创新和表型多样性至关重要.
- 目前的基因家族分析需要专门的生物信息技术技能和耗时的工作流程,这限制了许多研究人员的可访问性.
研究的目的:
- 开发GeneFamily,一个用户友好的数据库和网络界面,用于全面的哺乳动物基因家族分析.
- 克服技术障碍,加快基因家族进化,功能多样化和比较基因组学的研究.
主要方法:
- 利用了来自138种哺乳动物的全基因组数据.
- 利用Pfam-A隐藏的马尔科夫模型来识别和包括2036个基因家族.
- 开发了一个直观的网络界面,用于交互式数据探索和可视化.
主要成果:
- GeneFamily为2036个哺乳动物基因家族提供了广泛的注释和交互式可视化.
- 用户可以探索基因分布,家族遗传树,序列身份,结构特征,保存动机,染色体定位,基因对线性,重复事件和适应性签名.
- 数据库大大降低了非专业用户的技术障碍.
结论:
- 通过提供可访问的生物信息学工具,GeneFamily使哺乳动物基因家族研究民主化.
- 该数据库加速了进化基因组学和哺乳动物功能多样化的发现.
- 它是比较基因组学和理解遗传创新的宝贵资源.
相关概念视频
01:57Gene Families
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01:57Gene Families
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Gene families consist of groups of genes proposed to have originated from a common ancestor. Typically these arise through events in which a gene or genes are mistakenly duplicated during cell division. Unlike their parent genes (which are subject to selection pressure to maintain function), these gene copies do not need to preserve their sequences and may evolve at a relatively faster rate.
Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...
Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...
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03:36Genome 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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02:54Evolutionary 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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02:47Protein Families
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Protein families are groups of homologous proteins; that is, they have similarities in amino acid sequences and three-dimensional structures. Protein families usually occur because of gene duplication, where an additional copy of a gene is inserted into the genome of an organism. Mutations that change the amino acids but still allow the protein to be properly synthesized, will lead to new protein family members. If these new proteins contain similar amino acids in key...
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02:47Protein Families
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