Mouse Kidney Atlas (MKA) & MKA-Extended: Single-cell and single-nucleus reference atlases of the mouse kidney

This deposit contains two linked datasets of the mouse kidney: 1. MKA (Mouse Kidney Atlas) A comprehensive reference atlas of the healthy adult mouse kidney, generated by integrating approximately 140,000 cells and nuclei from 59 publicly available single-cell and single-nucleus RNA-sequencing datasets across eight independent studies.The MKA harmonizes annotations through a hierarchical cell-type model, enabling robust cross-study comparisons and accurate labeling of novel or rare cell populations. Original publication: Novella-Rausell et al., iScience (2023). “A comprehensive mouse kidney atlas enables rare cell population characterization and robust marker discovery.” DOI: 10.1016/j.isci.2023.106877 Format: AnnData object (~141,401 observations × 3,000 genes) 2. MKA-Extended An expanded version of the MKA. This extended atlas incorporates immune, injury-induced, and polycystic kidney disease–specific cellular populations, providing a unified reference for Tangram-based deconvolution of spatial transcriptomics datasets. Original publication: Yasinoglu et al., JASN, (2025). “Spatial Transcriptomics Reveals Injured Cells, Signature Genes, and Communication Patterns in the Cyst Microenvironment of Polycystic Kidney Disease.” DOI: 10.1681/ASN.0000000894 Format: AnnData object (~303,791 observations × 12,156 genes)本数据集存档包含两组关联的小鼠肾脏相关数据集： 1. MKA（小鼠肾脏图谱，Mouse Kidney Atlas） 该数据集为健康成年小鼠肾脏的综合参考图谱，整合了来自8项独立研究的59个公开单细胞及单细胞核RNA测序数据集，共纳入约14万个细胞与细胞核。MKA通过层级细胞类型模型统一注释，可实现可靠的跨研究比较，并能精准标注新型或稀有细胞群。 原始发表文献：Novella-Rausell 等，《iScience》（2023年），论文题为《完整小鼠肾脏图谱可实现稀有细胞群表征与可靠标志物发掘》。DOI：10.1016/j.isci.2023.106877 数据格式：AnnData 对象（约141,401个观测值 × 3,000个基因） 2. MKA-扩展版（MKA-Extended） 该扩展版本为MKA的扩增图谱，纳入了免疫细胞、损伤诱导型细胞及多囊肾病特异性细胞群，可为基于Tangram的空间转录组数据集反卷积分析提供统一参考标准。 原始发表文献：Yasinoglu 等，《美国肾脏病学会杂志（JASN）》（2025年），论文题为《空间转录组学揭示多囊肾病囊肿微环境中的损伤细胞、特征基因及通讯模式》。DOI：10.1681/ASN.0000000894 数据格式：AnnData 对象（约303,791个观测值 × 12,156个基因）