Data related to "Upper cortical layer-driven network impairment in schizophrenia" paper, by Batiuk, Tyler et al.

This is Data for "Upper cortical layer-driven network impairment in schizophrenia" paper, by Batiuk, Tyler et al., 2022 This repository contains: Supplementary Dataset Tables 1-4 (Supplementary_Dataset_Tables_1-4.xlsx). They contain DE genes and GO terms from snRNA-seq and visium analysis. Single nuclei and Visium spatial transcriptomics sequencing data (snRNA-seq_and_spatial_transcriptomics.zip) containing raw count matrices of snRNA-seq samples; Conos object with aligned snRNA-seq samples; snRNA-seq single nuclei cell subtype annotations; raw count matrices of Visium spatial transcriptomics samples; Visium spatial transcriptomics manual histological cortical layer annotations; and 10x Genomics spaceranger count pipeline output for Visium spatial transcriptomics data. Histological images of H&E stained Visium spatial transcriptomics samples mounted on visium slide capture area (visium_sample_images.zip)本数据集为Batiuk、Tyler等人2022年发表的论文《精神分裂症中大脑皮层上层驱动的网络损伤》（"Upper cortical layer-driven network impairment in schizophrenia"）所用数据。本仓库包含以下内容： 1. 补充数据集表1-4（Supplementary_Dataset_Tables_1-4.xlsx），其中包含来自单细胞核RNA测序（single nuclear RNA sequencing，snRNA-seq）与Visium空间转录组分析的差异表达基因（Differentially Expressed Genes，DE genes）以及基因本体论术语（Gene Ontology terms，GO terms）； 2. 单细胞核与Visium空间转录组测序数据压缩包（snRNA-seq_and_spatial_transcriptomics.zip），内含snRNA-seq样本的原始计数矩阵、经对齐的snRNA-seq样本的Conos对象、snRNA-seq单细胞核细胞亚型注释信息、Visium空间转录组样本的原始计数矩阵、Visium空间转录组的人工组织学大脑皮层层注释信息，以及针对Visium空间转录组数据的10x Genomics spaceranger计数分析流程输出结果； 3. 固定于Visium玻片捕获区域的苏木精-伊红（Hematoxylin-Eosin，H&E）染色Visium空间转录组样本的组织学图像压缩包（visium_sample_images.zip）