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DEWNA:动态重网络分析及其应用在A549细胞中DNA结合蛋白质上,这些细胞受到西斯产生的损伤

Shisheng Wang^1,2,3, Wenjuan Zeng^1,2,3, Yin Yang^1,2

¹Department of General Surgery and Liver Transplant Center, Proteomics-Metabolomics Analysis Platform, NHC Key Lab of Transplant Engineering and Immunology, West China Hospital, Sichuan University, Chengdu, China.

Briefings in bioinformatics

|November 1, 2024

概括

这项研究引入了DEWNA软件,用于分析在西斯化疗后DNA结合蛋白 (DBPs) 的动态变化. 它揭示了这些蛋白质和通路如何随着时间的推移对DNA损伤作出反应,为细胞死亡机制提供了新的见解.

科学领域:

生物化学生物化学
分子生物学分子生物学
计算生物学计算生物学

背景情况:

西斯是固体瘤的重要化疗剂.
西斯普拉丁通过-DNA附加物诱导DNA损伤,触发细胞反应.
了解DNA结合蛋白 (DBPs) 在西斯普拉丁反应中的动态作用至关重要,但缺乏系统研究.

研究的目的:

开发和验证一个新的软件工具DEWNA,用于分析DBP的动态变化.
调查DBP的时间动态及其功能作用,以应对西斯普拉丁诱导的DNA损伤.
在西斯治疗期间提供通路相互作用和细胞命运决定的全面视图.

主要方法:

开发DEWNA软件,使用权重方法,基因共表达网络分析和记者得分分析.
应用DEWNA的时间过程蛋白质组数据从A549细胞治疗西斯 (8个时间点).
使用数据独立获取质谱法 (DIA-MS) 获取数据.

主要成果:

DEWNA有效地识别了关键的蛋白质枢纽,并在对西斯的反应中显著改变了路径.
该软件提供了治疗过程中途径相互作用和反应的动态概述.
观察到不同的DNA修复途径和细胞死亡机制被动地激活.

结论:

DEWNA 是一个用户友好的工具,用于分析动态蛋白质组数据,以应对基因毒性压力.
这项研究为细胞对西斯胺诱导的DNA损伤反应的时间分子机制提供了新的见解.
在DBPs和途径的动态变化是化疗期间细胞命运的关键决定因素.

关键词:

共同表达网络的共同表达网络动态重量动态重量蛋白质中心蛋白质中心时间课程时间课程

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