PhosNetVis:一个基于网络的工具,用于快速酶基质丰富分析和互动式2D/3D网络可视化蛋白学数据的网络可视化
Osho Rawal1,2, Berk Turhan1,3,2, Irene Font Peradejordi1,4
1Department of Genetics and Genomics, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
ArXiv
|July 16, 2024
概括
PhosNetVis是一个新的网络工具,可以帮助研究人员分析蛋白质酸化数据. 它简化了推断酶-基质相互作用 (KSIs) 和可视化复杂网络,以获得更好的生物洞察力.
科学领域:
- 生物化学 生化学
- 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:
- 蛋白质酸化是一种关键的调节机制.
- 液体染色学-质谱学产生了大型的蛋白质组学数据集.
- 现有的工具难以对复杂的酶-基质相互作用 (KSI) 网络进行交互式探索.
研究的目的:
- 开发一个用户友好的基于Web的工具,用于分析蛋白质组学数据.
- 为了促进互动探索和可视化KSI网络.
- 为了降低研究人员从蛋白质组学数据中获得生物学见解的障碍.
主要方法:
- 开发一个基于Web的应用程序PhosNetVis.
- 将蛋白组学数据分析步骤集成到一个单一的工具中.
- 实施KSI网络的交互式2D和3D可视化.
主要成果:
- PhosNetVis使研究人员能够推断和探索KSI网络.
- 该工具支持对大型和复杂的蛋白组学数据集进行交互式分析.
- 高质量的可视化可以快速生成用于生物洞察力.
结论:
- PhosNetVis解决了对用户友好的蛋白质组学数据探索的未满足需求.
- 该工具使所有计算技能水平的研究人员能够分析酸化数据.
- PhosNetVis 便于从复杂的蛋白组学数据集生成生物见解.
关键词:
3D可视化的3D可视化在CPTAC中,我们可以看到.快速酶基质丰富分析交互式可视化 交互式可视化基因酶-基质相互作用网络可视化 网络可视化光蛋白质组学 光蛋白质组学 光蛋白质组学酸化的方法是:光化.更多相关视频
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相关概念视频
01:02Phosphorylation
The addition or removal of phosphate groups from proteins is the most common chemical modification that regulates cellular processes. These modifications can affect the structure, activity, stability, and localization of proteins within cells as well as their interactions with other proteins.
During phosphorylation, protein kinases transfer the terminal phosphate group of ATP to specific amino acid side chains of substrate proteins. Serine, threonine, and tyrosine are the most commonly...
During phosphorylation, protein kinases transfer the terminal phosphate group of ATP to specific amino acid side chains of substrate proteins. Serine, threonine, and tyrosine are the most commonly...
02:54Protein Kinases and Phosphatases
Proteins undergo chemical modifications that trigger changes in the charge, structure, and conformation of the proteins. Phosphorylation, acetylation, glycosylation, nitrosylation, ubiquitination, lipidation, methylation, and proteolysis are various protein modifications that regulate protein activity. Such modifications are usually enzyme-driven.
Protein kinases
Many proteins in the cell are regulated by phosphorylation, the addition of a phosphate group. A family of enzymes called kinases...
Protein kinases
Many proteins in the cell are regulated by phosphorylation, the addition of a phosphate group. A family of enzymes called kinases...
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,...
02:54Protein Kinases and Phosphatases
Proteins undergo chemical modifications that trigger changes in the charge, structure, and conformation of the proteins. Phosphorylation, acetylation, glycosylation, nitrosylation, ubiquitination, lipidation, methylation, and proteolysis are various protein modifications that regulate protein activity. Such modifications are usually enzyme-driven.
Protein kinases
Many proteins in the cell are regulated by phosphorylation, the addition of a phosphate group. A family of enzymes called kinases...
Protein kinases
Many proteins in the cell are regulated by phosphorylation, the addition of a phosphate group. A family of enzymes called kinases...