Region-Specific Transcriptional Signatures of Brain Aging in the Absence of Neuropathology at the Single-cell Level
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Single nuclear RNA-sequencing was performed on human post-mortem brain tissue from four distinct regions that have implications for neurodegenerative diseases, including Alzheimer's and Parkinson’s diseases. Younger, aged 20s to 30s, and middle-aged and older, aged 60s to 80s, adults were used to identify changes in cell populations and transcriptomes during aging. Files included:aging.glmmtmb_age_diffs.csv.gz - All results modeled using glmmTMBaging.glmmtmb_age_diffs_fdr.csv.gz - glmmTMB results with a statistically significant result Column headers for the glmmtmb results are:feature - gene nameintercept - regression interceptestimate - regression coefficientstd.error - standard errorstatistic - regression test statisticp.value - regression p-valuetissue - the cell-type (varying specificty, use in combinationfor type column)type - type for 'tissue' column; 'broad_celltype', 'region_broad_celltype', or 'specific_celltype'fdr_bh - B&H FDR multiple-test corrected p-value aging.diffxpy_age_diffs.csv.gz - All results using diffxpy differential expressionaging.diffxpy_age_diffs_fdr.csv.gz - diffxpy results with a statistically significant result Column headers for the diffxpy results are:gene - gene namepval - p-value for differential expressionqval - q-value for differential expression; multiple-test corrected p-valuelog2fc - log base 2 fold change in expressionmean -zero_mean -zero_variance -tissue - the cell-type (varying specificty, use in combinationfor type column)type - type for 'tissue' column; 'broad_celltype', 'region_broad_celltype', or 'specific_celltype'fdr_bh - B&H FDR cmultiple-test orrected p-value aging.h5ad - AnnData containing the demultiplexed unprocessed/non-transformed quantified expression data. aging.pegasus.leiden_085.subclustered.h5ad - AnnData containing the fully processed, transformed, clustered, and cell-type labeled expression data.
本数据集针对与阿尔茨海默病、帕金森病等神经退行性疾病相关的4个不同人类死后脑组织区域，开展了单核RNA测序（single nuclear RNA-sequencing）实验。研究纳入20至30岁的青年群体以及60至80岁的中老年群体成年受试者，旨在解析衰老过程中细胞群体与转录组的动态变化。 包含的数据文件如下： 1. `aging.glmmtmb_age_diffs.csv.gz`：采用glmmTMB模型构建的全部差异分析结果 2. `aging.glmmtmb_age_diffs_fdr.csv.gz`：经glmmTMB模型分析得到的具有统计学显著性的结果 其结果文件的列名含义为： - `feature`：基因名称 - `intercept`：回归截距 - `estimate`：回归系数 - `std.error`：标准误 - `statistic`：回归检验统计量 - `p.value`：回归p值 - `tissue`：细胞类型（具有可变特异性，需与`type`列联合使用以明确细胞类型） - `type`：`tissue`列的类型，可选值为`broad_celltype`（宽泛细胞类型）、`region_broad_celltype`（区域-宽泛细胞类型）或`specific_celltype`（特异性细胞类型） - `fdr_bh`：Benjamini-Hochberg（B&H）法校正后的多重检验p值（错误发现率） 3. `aging.diffxpy_age_diffs.csv.gz`：采用diffxpy工具进行差异表达分析得到的全部结果 4. `aging.diffxpy_age_diffs_fdr.csv.gz`：经diffxpy分析得到的具有统计学显著性的结果 其结果文件的列名含义为： - `gene`：基因名称 - `pval`：差异表达分析的p值 - `qval`：差异表达分析的校正q值（即多重检验校正后的p值） - `log2fc`：表达量的log₂倍变化 - `mean`：平均表达量 - `zero_mean`：零表达均值 - `zero_variance`：零表达方差 - `tissue`：细胞类型（具有可变特异性，需与`type`列联合使用以明确细胞类型） - `type`：`tissue`列的类型，可选值为`broad_celltype`（宽泛细胞类型）、`region_broad_celltype`（区域-宽泛细胞类型）或`specific_celltype`（特异性细胞类型） - `fdr_bh`：Benjamini-Hochberg（B&H）法校正后的多重检验p值 5. `aging.h5ad`：包含解复用后的未处理/未转换的定量表达数据的AnnData文件 6. `aging.pegasus.leiden_085.subclustered.h5ad`：包含经过完整处理、转换、聚类并标注细胞类型的表达数据的AnnData文件
