A Single-Cell Atlas of Cell Types, States, and Other Transcriptional Patterns from Nine Regions of the Adult Mouse Brain

We report 690K single-cell transcriptomes from nine different brain regions from adult mice (Frontal and Posterior Cortex, Hippocampus, Thalamus, Cerebellum, Striatum, Globus Pallidus externus/Nucleus Basalis, Entopeduncular / Subthalamic Nuclei, & Substantia Nigra / Ventral Tegmental Area). Single-cell suspensions were made from P60-70 C57BL/6 male mice (3-7 replicates / mouse) and sampled with Drop-seq. On average, each cell received 17.4 K Illumina sequencing reads from which we counted 2.2K transcripts and 1.2 K genes. In total, we measure 31.7K unique genes.

本研究报道了来自成年小鼠9个不同脑区的69万个单细胞转录组（single-cell transcriptome），涵盖脑区包括额叶皮层与后皮层、海马体、丘脑、小脑、纹状体、苍白球外侧部/基底核、脚内核/丘脑底核，以及黑质/腹侧被盖区。实验使用P60-70日龄的C57BL/6雄性小鼠制备单细胞悬液（每只小鼠设置3-7个生物学重复），并通过Drop-seq技术完成样本采样。平均每个细胞可获取17.4千条Illumina测序读段，据此可定量得到2.2千个转录本与1.2千个表达基因。本数据集共覆盖31.7千个独特基因。