一本指南开发综合系统生物学疾病机制地图:规划,建造和维护的指南
Alexander Mazein1, Marcio Luis Acencio1, Irina Balaur1
1Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, Esch-sur-Alzette, Luxembourg.
Frontiers in bioinformatics
|July 10, 2023
概括
本指南提供了一步一步的方法来创建疾病地图,这是疾病机制的概念模型. 它详细介绍了使用CellDesigner,MINERVA平台和Neo4j进行网络重建,可视化和数据管理,确保FAIR原则.
科学领域:
- 系统生物学 系统生物学
- 计算生物学 计算生物学
- 生物信息学是一种生物信息学.
背景情况:
- 疾病地图将知识整合到疾病机制模型中,帮助数据解释,预测和假设生成.
- 开发高质量的疾病地图需要专门的工具和方法,这对新研究人员来说是一个挑战.
- 现有的方法需要一个结构化的指南,以促进有效的学习和采用.
研究的目的:
- 为构建疾病地图提供全面的,逐步指南.
- 为疾病地图开发引入主流管道,强调实际应用.
- 展示用于网络重建,可视化和数据管理的特定工具的集成.
主要方法:
- 使用CellDesigner创建和编辑疾病地图图.
- 使用MINERVA平台进行在线可视化和疾病地图的交互式探索.
- 利用Neo4j图形数据库来有效管理和查询疾病地图数据.
- 应用FAIR (可查找,可访问,可互操作,可重复使用) 原则,以确保数据的互操作性和可重复性.
主要成果:
- 提出了疾病地图开发的明确管道,整合了已有的工具.
- 该指南有助于引入新的策展者对疾病地图构建方法的介绍.
- 证明FAIR原则的应用提高了创建的疾病地图的实用性和可重复使用性.
结论:
- 提出的方法简化了复杂疾病地图的创建和管理.
- 这本指南使研究人员能够有效地构建和利用疾病地图来获得生物学见解.
- 遵守FAIR原则确保疾病地图作为科学界的强大,可互操作的资源.
相关概念视频
02:26Protein Networks
An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
02:26Protein Networks
An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...