Supplementary table of PRIDE datasets analyzed for "FAVA: High-quality functional association networks inferred from scRNA-seq and proteomics data"

Our proteomics dataset comes from The PRoteomics IDEntifications (PRIDE) database, the world’s largest data repository of mass spectrometry-based proteomics data. Specifically, we used 633 human proteomics project experiments with a total of 32,546 runs and reanalyzed them using ionbot with an FDR threshold of 0.01 [16], resulting in a total of 154,885,151 peptide spectrum matches for 18,846 proteins. Here is the full list of projects, runs, and general statistics.

本蛋白质组学数据集源自蛋白质组学鉴定（PRoteomics IDEntifications, PRIDE）数据库——该数据库为全球规模最大的基于质谱技术的蛋白质组学数据资源库。具体而言，我们选取其中633个人类蛋白质组学项目实验，总计32546次质谱运行，并采用错误发现率（False Discovery Rate, FDR）阈值为0.01的ionbot工具对这批数据进行重新分析[16]，最终得到针对18846种蛋白质的共计154885151条肽谱匹配结果。以下为所有项目、质谱运行次数及整体统计数据的完整清单。