用PEAKS GlycanFinder进行糖数据库搜索和de novo测序,使高度敏感的糖蛋白组学成为可能
Weiping Sun1, Qianqiu Zhang2, Xiyue Zhang1
1Bioinformatics Solutions Inc., Waterloo, Ontario, Canada.
Nature communications
|July 8, 2023
概括
GlycanFinder是使用质谱法分析完整的糖的新工具. 它准确地识别出已知和新型的糖,推进了糖蛋白组学研究.
科学领域:
- 生物化学 生物化学
- 计算生物学 计算生物学
- 质谱测量质量谱测量
背景情况:
- 糖分析对于理解生物过程至关重要.
- 在质谱学中,复杂的碎片化模式对糖的识别构成了挑战.
- 现有的工具与新的甘氨酸结构和异构体差异化作斗争.
研究的目的:
- 开发和验证GlycanFinder,一个用于完整的糖分析的新型计算工具.
- 整合以和糖为中心的搜索策略,以全面识别糖.
- 通过使用深度学习模型,使未知甘氨酸的 de novo 测序成为可能.
主要方法:
- GlycanFinder采用基于和糖的综合搜索策略.
- 一个深度学习模型被用来对糖结构进行 de novo 测序.
- 使用基准和错误发现率 (FDR) 分析进行了广泛的验证.
- 进行了质谱测试实验,以分析抗体N相关的糖化.
主要成果:
- 在FDR控制和识别数量方面,GlycanFinder表现出与领先的糖蛋白组学软件相当的性能.
- 该工具成功地识别了现有数据库中不存在的糖.
- GlycanFinder可以区分异构和甘,这是一个显著的进步.
- 对于免疫球蛋白G子类,可以实现准确的N-链接甘化概况.
结论:
- GlycanFinder是通过质谱仪进行全面的糖分析的有效工具.
- 该工具通过识别新型葡萄糖和解决异构复杂性来增强葡萄糖蛋白组学.
- GlycanFinder推进了甘氨酸结构阐明和N链接甘氨基化概况的领域.
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