Research data for: The "Myasthenia Gravis Effect" in Thymoma - DIA serum proteomics (myasthenia gravis)

DIA (data-independent acquisition) serum proteomics dataset supporting the manuscript "The Myasthenia Gravis Effect in Thymoma: A Serum Proteomic Panel of MG-Specific Proteins Revealed by DIA Mass Spectrometry" (Journal of Neuroimmunology). Study design: 157 serum samples across 10 clinically defined groups (712 proteins identified, 629 quantified). Main comparisons: thymoma with myasthenia gravis (MG) vs thymoma without MG (TMGOP vs TNMG, the "MG-effect layer"); thymic hyperplasia with MG vs healthy controls (HMGOP vs CON). Contents: differentially expressed protein (DEP) tables, per-protein statistics with rank-based AUC, panel performance (in-sample and leave-one-out cross-validation AUC), sensitivity analyses (pooled-sample exclusion), and Python analysis scripts for reproducibility. Key results: 46 DEPs (P<0.05, |log2FC|>=1) in the MG-effect layer; a 7-gene panel (ARF3, AZU1, FTL, KRT10, KRT2, KRT6A, KRT6B) shared across MG presentations with LOO-CV AUC 0.98-0.99. Raw mass-spectrometry files are subject to institutional data-use agreements (project LM2019-1762) and available from the corresponding author on reasonable request.DIA（数据非依赖采集，data-independent acquisition）血清蛋白质组学数据集，用于支撑发表于《Journal of Neuroimmunology》（神经免疫学杂志）的研究论文《胸腺瘤中的重症肌无力效应：基于DIA质谱鉴定的重症肌无力特异性血清蛋白组学标志物组合》。研究设计：纳入10个临床定义组别共157份血清样本，共鉴定出712种蛋白质，定量得到629种蛋白质。主要对比分组包括：伴重症肌无力（MG）的胸腺瘤与不伴MG的胸腺瘤（TMGOP vs TNMG，即“MG效应层”）；伴MG的胸腺增生与健康对照（HMGOP vs CON）。数据集内容：包含差异表达蛋白（differentially expressed protein, DEP）分析表格、基于秩统计的单蛋白AUC统计数据、蛋白标志物组合性能（样本内及留一法交叉验证AUC，leave-one-out cross-validation, LOO-CV）、敏感性分析（混合样本排除分析）结果，以及用于保障研究可复现的Python分析脚本。关键结果：在MG效应层中筛选得到46种差异表达蛋白（P<0.05，|log₂FC|≥1）；构建得到1组7基因标志物组合（ARF3、AZU1、FTL、KRT10、KRT2、KRT6A、KRT6B），该组合可覆盖各类MG表型，其LOO-CV AUC值介于0.98~0.99之间。原始质谱文件受机构数据使用协议（项目编号LM2019-1762）约束，可通过通讯作者提出合理申请获取。