Data-independent acquisition (DIA) mass spectrometry, also known as Sequential Window Acquisition of all Theoretical Mass Spectra (SWATH), is a popular label-free proteomics strategy to comprehensively quantify peptides/proteins utilizing mass spectral libraries to decipher inherently multiplexed spectra collected linearly across a mass range. Although there are many spectral libraries produced worldwide, the quality control of these libraries is lacking. We present the DIALib-QC (DIA library quality control) software tool for the systematic evaluation of a library’s characteristics, completeness and correctness across 62 parameters of compliance, and further provide the option to improve its quality. We demonstrate its utility in assessing and repairing spectral libraries for correctness, accuracy and sensitivity.

数据独立采集（DIA）质谱，也称为所有理论质谱的顺序窗口采集（SWATH），是一种流行的无标记蛋白质组学策略，可利用质谱库对线性收集的固有多路复用质谱图进行全面定量的肽/蛋白质在整个质量范围内。尽管世界范围内生产了许多光谱库，但仍缺乏对这些库的质量控制。我们提供了DIALib-QC（DIA图书馆质量控制）软件工具，用于通过62个合规性参数对图书馆的特征，完整性和正确性进行系统评估，并进一步提供了提高其质量的选择。我们展示了其在评估和修复光谱库的正确性，准确性和灵敏度方面的实用性。