Mouse organoid single cell RNA-seq

The complex signaling “crosstalk” between tumor cells and their stroma plays an important role in tumor development, metastasis, and therapeutic response. To recapitulate and study the intercellular communications in vitro, we established an organoid model from murine gastric tissues using the air-liquid interphase (ALI) method and engineered oncogenic p53 inactivation into the organoids. Importantly, this p53 null organoid model contains epithelium with endogenous stroma and does not require exogenous Wnt stimulation. To systematically characterize the distinct cellular lineages and their interactions in this model, we applied a droplet-based single cell RNA sequencing (scRNA-seq) platform to profile the transcriptomes of thousands of individual cells from the tissue explants and organoids.

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