Project description:Transcriptomic analysis of the colon from a wildtype 8 week old female mice in C57BL6 background. In particular, we characterized the expression of genes encoding known receptors for Regenerating islet-derived proteins (REG3III) among the different colonic intestinal epithelial cell subsets under steady state. Colonic DCLK1+ tuft cell-containing spots had the highest expression levels of genes encoding various REG3III receptors.
Project description:To perform a global analysis of high fiber diet-induced changes in gene expression in various compartments of the colonic microenvironment, we employed a spatial transcriptomic analysis using the 10X Genomics® platform. This technique allowed for visualization of gene expression in histological cross-sections of the distal colon with spatial information and therefore enabled detection of differentially expressed genes simultaneously in diverse cell types, together with information about their anatomical location in the tissue. Distal colon samples were processed using a Visium Spatial Gene Expression Slide & Reagent Kit (PN-1000184, 10X Genomics) as per the manufacturer’s instructions. Unbiased clustering divided the colon into four distinct zones: epithelium, lamina propria & submucosa, muscularis, and neuronal plexus, as visualized by hematoxylin and eosin (H&E) staining.
Project description:We report the application of single-molecule-based sequencing technology for high-throughput profiling of mRNA expression profile for colon tissues from wildtype and CARD9 knockout mice treated with AOM/DSS
Project description:This study generated spatial transcriptomic profiles of ileum, cecum, and colon from specific pathogen-free (SPF) and germ-free (GF) Kunming (KM) mice using the BGI Stereo-seq platform. The dataset captures spatial organization and segment-specific immune niches in the absence of microbiota.