PhyloSophos:一个高通量科学名称映射算法,增强了对分类科学的明确考虑,并将其应用于自然产品 (NP) 发生数据库处理
Min Hyung Cho1, Kwang-Hwi Cho2, Kyoung Tai No3,4
1Bioinformatics and Molecular Design Research Center (BMDRC), 209, Veritas A Hall, Yonsei University, 85 Songdogwahak-ro, Yeonsu-gu, Incheon, 21983, Republic of Korea. mhcho@bmdrc.org.
BMC bioinformatics
|December 15, 2023
概括
科学名称在数据集成方面存在问题. 新的Python包PhyloSophos准确地将科学名称映射到参考数据库中,改善了生物数据的生物信息学分析.
科学领域:
- 生物信息学是一种生物信息学.
- 系统生物学 系统生物学
- 计算生物学 计算生物学
背景情况:
- 用独特标识符标准化生物数据对于数据集成,解释和可重复性至关重要.
- 科学名称虽然是常见的标识符,但缺乏稳定性,独特性和可转换性,阻碍了数据库的使用.
- 这对于自然产品 (NP) 发生数据库来说尤其有问题,限制了大规模的研究.
研究的目的:
- 开发一种方法,准确地将科学名称映射到参考数据库中.
- 克服科学名称在生物数据库中作为标识符的局限性.
- 为了促进生物数据的高通量分析.
主要方法:
- 开发了PhyloSophos,这是一个用于绘制科学名称的Python包.
- 该包考虑了科学名称属性和分类系统.
- 说明了评估多个分类学数据库和预处理的重要性.
主要成果:
- 菲洛索菲斯准确地将名称输入映射到引用数据库条目.
- 证明了基于分类语法的预处理的实用性.
- 展示了使用NP发生数据将异构信息集成到统一数据集中的方法.
结论:
- 菲洛索福斯 (PhyloSophos) 帮助系统地处理数字化和精选的生物数据.
- 能够对生物多样性和民族药理资源进行全面的生物信息学分析.
- 便于集成和利用有价值的,往往数字化不良的数据.
更多相关视频
08:55Author Spotlight: Harnessing DNA Barcode Technology to Enhance the Efficiency of Medicinal Plant Identification
Published on: November 1, 2024
1.5K
08:20Systematic Approach to Identify Novel Antimicrobial and Antibiofilm Molecules from Plants' Extracts and Fractions to Prevent Dental Caries
Published on: March 31, 2021
6.4K
相关概念视频
Evolutionary Relationships through Genome Comparisons
5.7K
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...
5.7K
Phylogenetic Trees
45.4K
Phylogenetic trees come in many forms. It matters in which sequence the organisms are arranged from the bottom to the top of the tree, but the branches can rotate at their nodes without altering the information. The lines connecting individual nodes can be straight, angled, or even curved.
45.4K
Phylogeny
44.2K
Phylogeny is concerned with the evolutionary diversification of organisms or groups of organisms. A group of organisms with a name is called a taxon (singular). Taxa (plural) can span different levels of the evolutionary hierarchy. For instance, the group containing all birds is a taxon (comprising the class Aves), and the group of all species of daisies (the genus Bellis) is a taxon. Phylogenies can likewise include just one genus (i.e., depict species relationships) or span an entire kingdom.
44.2K
