一个全面而强大的多重复合-DIA工作流程配置文件 蛋白质周转规则 与西斯胺抗性相关
Barbora Salovska1,2, Wenxue Li1,2, Oliver M Bernhardt3
1Department of Pharmacology, Yale University School of Medicine, New Haven, CT 06520, USA.
bioRxiv : the preprint server for biology
|November 18, 2024
概括
本研究介绍了一种改进的工作流程和软件 (KdeggeR),用于使用动态SILAC和DIA-MS分析蛋白质周转. 该方法提高了准确性,并揭示了与癌细胞中抗思素相关的蛋白质降解特征.
科学领域:
- 蛋白质组学是指蛋白质组学.
- 系统生物学 系统生物学
- 生物化学 生物化学
背景情况:
- 蛋白质循环对于细胞过程和药物发现至关重要.
- 动态SILAC与DIA-MS相结合是蛋白质周转分析的可靠方法.
- 现有的DIA-MS工作流程在检测同位素信号对方面存在局限性.
研究的目的:
- 开发一个改进的,强大的工作流程,以全面的蛋白质周转概况.
- 介绍KadeggeR,这是一个处理和分析pSILAC-DIA实验的包.
- 为了研究在西斯普拉丁耐药性发展中的蛋白质周转率.
主要方法:
- 一个改进的多重 DIA-MS 工作流程,集成机器学习和特定道的统计过.
- 开发KdeggeR数据处理和分析软件包.
- 在标准的DIA数据集和在质谱测量平台上的基准测试.
主要成果:
- 工作流可以动态地适应道变化,以便进行全面的配置文件.
- KdeggeR估计和可视化和蛋白质降解率.
- 在癌细胞中观察到转录调节和蛋白质降解之间的负相关性.
- 确定了与西斯普拉丁耐药性相关的特定蛋白质周转签名.
结论:
- 开发的工作流程和KdeggeR包为pSILAC-DIA实验提供了一个强大的方法.
- 这些发现提供了关于癌症药物耐药性的蛋白质周转动态的见解.
- 这种方法促进了对治疗干预的细胞反应的理解.
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