Descriptor MassSpec proteome expression

For mass spectrometry analysis, blood samples were depleted of high abundant blood proteins using the High Select Top14 Abundant Protein Depletion Mini Spin Columns (Thermo Scientific, catalog no A36369) as described by the manufacturer. The total number of samples was analyzed in four separate runs. The four sets were labeled, each set of labeled 16 samples included the same reference sample labeled with TMTpro-126 reagent. The collected peptide fractions were analyzed by LC-MS for peptide/protein identification and quantification. Raw mass spectrometry data was then normalized. The resulting values were log₂ transformed, missing values were set to zero, and then batch corrected for the runs This resulted in data file: sbst4_norm_btchcorrLIMMA_lg2_SIG_MassSpec_2023_260623_2.txt.The descriptor of the participants is provided here as table sbst4_target_SIG_MassSpec_2023_230724a.xlsx

针对质谱分析，按照制造商说明书的操作流程，使用High Select Top14高丰度蛋白去除微型离心柱（High Select Top14 Abundant Protein Depletion Mini Spin Columns，赛默飞世尔科技，Thermo Scientific，货号A36369）对血液样本开展高丰度血浆蛋白去除处理。全部样本共分为4批独立上机分析。4个样本组均完成标记，每组16个标记样本中均包含一份采用TMTpro-126标记试剂（TMTpro-126 reagent）标记的同一份参考样本。收集得到的肽段组分通过液相色谱-质谱联用仪（Liquid Chromatography-Mass Spectrometry, LC-MS）完成肽段与蛋白质的鉴定及定量分析。随后对原始质谱数据进行归一化处理：对所得数值进行以2为底的对数变换，将缺失值赋值为0，再针对各上机批次进行批次效应校正，最终得到数据文件sbst4_norm_btchcorrLIMMA_lg2_SIG_MassSpec_2023_260623_2.txt。研究对象的相关信息详见表格sbst4_target_SIG_MassSpec_2023_230724a.xlsx。