Gene expression profile at single cell level of Paneth cells from the small intestine upon genetic targeting and in inflammatory conditions

We combined lineage tracing with single cell RNA sequencing (scRNA-seq) to study the mechanisms underlying the conversion of Paneth cells into bona fide tumor cells. Crypts were purified from the small intestine, and enzymatically dissociated with TryplE to obtain a single cell suspension. Cells were stained with fluorescent antibodies (Cd24, cKit) and with Hashing antibodies. Paneth cells were enriched by Fluorescence-activated cell sorting (FACS) according to the SSChiCD24hicKithi gate or by the presence of Yfp/td-Tomato signal. Sorted cells from several mice (controls + genetic targeting) were mixed and processed as Paneth Pool (PP) with 10X Gene expression profiling technology with feature barcoding).