相关实验视频

Updated: Jun 24, 2025

A Web Tool for Generating High Quality Machine-readable Biological Pathways

A Web Tool for Generating High Quality Machine-readable Biological Pathways

Published on: February 8, 2017

生物文本图:从文本信息中对功能相似性的图形总结

Noriaki Sato¹, Yao-Zhong Zhang¹, Zuguang Gu²

¹Division of Health Medical Intelligence, Human Genome Center, The Institute of Medical Science, The University of Tokyo, Tokyo 108-8639, Japan.

Bioinformatics (Oxford, England)

|June 9, 2024

概括

本研究介绍了biotextgraph,这是一个用于可视化omics数据文本描述的R包. 它增强了对生物实体的功能解释,超出了传统的丰富分析.

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:

生物实体的功能解释,如差异表达的基因,在生物信息学中至关重要.
现有的丰富分析 (EA) 方法主要依赖于生物通路数据库.
公共数据库中生物实体的文本描述在发现新生物机制方面未得到充分利用.

研究的目的:

介绍一下biotextgraph,这是一款用于图形总结omics文本数据的新R包.
通过使用文本挖掘来评估生物实体列表之间的功能相似性.
通过整合文本信息来补充传统的EA,以获得更深入的生物学见解.

主要方法:

生物文本图 R 包的开发.
将图形总结应用于omics文本描述数据.
与传统的丰富分析进行比较分析.

主要成果:

生物文本图包提供了与生物实体相关的文本数据的图形可视化.
基于文本的分析揭示了生物学上有意义的术语,这些术语不仅仅是由路径数据库识别的.
该包方便了基因标识符的注释,并与EA集成.

结论:

生物文本图提供了一种有价值的方法,通过利用文本描述来进行常规的OMIC数据分析.
文本数据可视化可以揭示路径为中心的方法错过的新生物学机制.
该包增强了对OMIC数据的功能解释,补充了现有的生物信息学工具.

更多相关视频

A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports

A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports

Published on: October 13, 2023

Selecting Multiple Biomarker Subsets with Similarly Effective Binary Classification Performances

Selecting Multiple Biomarker Subsets with Similarly Effective Binary Classification Performances

Published on: October 11, 2018

相关概念视频

Functional Groups

Functional Groups

Evolutionary Relationships through Genome Comparisons

Evolutionary Relationships through Genome Comparisons

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...

Protein Networks

Protein Networks

Gene Families

Gene Families

Protein Families

Protein Families

Genome Annotation and Assembly

Genome Annotation and Assembly

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.