BICAN_BG_Paired-Tag

The basal ganglia (BG) are central subcortical hubs that coordinate movement, cognition, and affect, and are strongly implicated in numerous neurological and psychiatric disorders. However, the regulatory mechanisms that establish and maintain basal ganglia cell-type identity remain incompletely understood, limiting interpretation of non-coding genetic variation associated with brain disease. This project provides processed data and analysis resources supporting a comprehensive single-cell multi-omic Paired-Tag atlas of the adult human basal ganglia. In this study, histone modification profiles (H3K27ac, H3K27me3, and H3K9me3) were jointly measured with transcriptomes at single-nucleus resolution across multiple anatomically defined BG subregions. Integrated analyses of chromatin states and gene expression delineate cell-type–resolved regulatory programs, including active and repressive regulatory elements, transcription factor networks, and spatially organized epigenomic features. Cross-species comparisons between human and mouse further identify conserved core neuronal regulatory circuits alongside divergent, inducible regulatory programs. This Zenodo repository hosts processed, analysis-ready datasets and summary tables, including: Due to file size constraints, raw sequencing data are not stored here. Raw Paired-Tag and RNA sequencing data are available through the NeMO Archive: https://assets.nemoarchive.org/dat-rrstbt3 Interactive visualization and exploration portals are available at: https://basalganglia.epigenomes.net/ https://wangcluster.wustl.edu/~wzhang/projects/MSN_epigenome/ Together, these resources provide a reference atlas of basal ganglia regulatory landscapes and a foundation for linking cell-type–specific regulatory elements to neuropsychiatric disease risk and variant interpretation.基底神经节（basal ganglia，BG）是皮层下的核心中枢枢纽，负责协调运动、认知与情绪调节，并与众多神经及精神疾病密切相关。然而，目前对于确立并维持基底神经节细胞类型特性的调控机制仍未完全阐明，这限制了我们对脑部疾病相关非编码遗传变异的解读。 本项目提供经过预处理的数据与分析资源，支撑成人人类基底神经节的全面单细胞多组学Paired-Tag图谱研究。本研究在多个解剖学定义的基底神经节亚区域中，以单细胞核分辨率同时检测了组蛋白修饰谱（H3K27ac、H3K27me3及H3K9me3）与转录组。通过整合染色质状态与基因表达的分析，我们明确了细胞类型分辨率下的调控程序，包括激活与抑制性调控元件、转录因子网络，以及具有空间组织特征的表观基因组特征。人与小鼠的跨物种比较进一步鉴定出保守的核心神经元调控回路，以及具有物种特异性的可诱导调控程序。 本Zenodo知识库托管了经过预处理、可直接用于分析的数据集与汇总表格，具体包括： 受限于文件大小，原始测序数据未存储于此。原始Paired-Tag与RNA测序数据可通过NeMO Archive获取： https://assets.nemoarchive.org/dat-rrstbt3 交互式可视化与探索门户可通过以下网址访问： https://basalganglia.epigenomes.net/ https://wangcluster.wustl.edu/~wzhang/projects/MSN_epigenome/ 综上，本系列资源构建了基底神经节调控景观的参考图谱，并为将细胞类型特异性调控元件与神经精神疾病风险及变异解读建立关联提供了坚实基础。