Additional file 3 of A proteomics analysis of 5xFAD mouse brain regions reveals the lysosome-associated protein Arl8b as a candidate biomarker for Alzheimer’s disease

Additional file 3: Supplementary Excel File 1a. DEPs from 5xFAD versus wild-type tissue comparisons in hippocampus and cortex; DEPs were defined using the “pairwise model”; Supplementary Excel File 1b. Summary of the statistical calculations from Supplementary Excel File 1a; Supplementary Excel File 1c. DEPs in both hippocampal and cortical tissues defined through the “full model”; Supplementary Excel File 2. DEPs that correlate or anticorrelate to Aβ aggregate load in both hippocampal and cortical tissues defined through the “pairwise model”; Supplementary Excel File 3. Identified genes differentially down- or upregulatedin cortex or hippocampus of 5xFAD mice; Supplementary Excel File 4. Results of the Ingenuity Pathway Analyses performed in Figures 3g and 4e; Supplementary Excel File 5a. Proteins with significant abundance changes from Johnson et al. 2020; Supplementary Excel File 5b. Proteins with significant abundance changes from Johnson et al. 2022; Supplementary Excel File 5c. Proteins with significant abundance changes from Johnson et al. 2022; Supplementary Excel File 5d. Proteins with significant abundance changes from Drummond et al. 2022; Supplementary Excel File 6. Numbers of common DEPs in mouse and human datasets; Supplementary Excel File 7. DEPs defined using a “pairwise model” and concomitantly altered both in mouse and human brain tissues from J20, J22 and D22. Supplementary Excel File 8a. The step-by-step selection process to identify the potential AD biomarker Arl8b. Supplementary Excel File 8b. The top 25 Aβ-correlated proteins in mouse hippocampal tissues.

附加文件3：补充Excel文件1a：通过“成对模型（pairwise model）”定义的差异表达蛋白（Differentially Expressed Proteins, DEPs），来自5xFAD小鼠与野生型小鼠海马体及大脑皮层组织的对比分析；补充Excel文件1b：补充Excel文件1a的统计计算结果汇总；补充Excel文件1c：通过“全模型（full model）”筛选得到的、同时在海马体与皮层组织中存在的差异表达蛋白；补充Excel文件2：通过“成对模型”筛选得到的、在海马体与皮层组织中与Aβ聚集负荷呈正相关或负相关的差异表达蛋白；补充Excel文件3：在5xFAD小鼠皮层或海马体中出现显著上调或下调的差异表达基因；补充Excel文件4：对应图3g与图4e的Ingenuity通路分析（Ingenuity Pathway Analysis, IPA）结果；补充Excel文件5a：来自Johnson等人2020年研究的、丰度发生显著变化的蛋白质；补充Excel文件5b：来自Johnson等人2022年研究的、丰度发生显著变化的蛋白质；补充Excel文件5c：来自Johnson等人2022年研究的、丰度发生显著变化的蛋白质；补充Excel文件5d：来自Drummond等人2022年研究的、丰度发生显著变化的蛋白质；补充Excel文件6：小鼠与人类数据集中共有的差异表达蛋白数量；补充Excel文件7：通过“成对模型”定义、且在J20、J22与D22模型的小鼠及人类脑组织中均发生显著改变的差异表达蛋白；补充Excel文件8a：筛选潜在阿尔茨海默病（Alzheimer's disease, AD）生物标志物Arl8b的分步筛选流程；补充Excel文件8b：小鼠海马体组织中排名前25的Aβ相关蛋白质。