GSM5224584: small intestine epithelium, Tet3KO, scRNA-seq; Mus musculus; RNA-Seq
Sorted E18.5 intestinal epithelial cells were fixed in 90% ice-cold methanol and stored at -80ºC until analysis. Tet3 knockout and wild-type samples correspond to a pool of intestinal epithelial cells from two embryos each. For analysis, cells were resuspended in 3x saline sodium citrate buffer containing 0.04% BSA, 1% SUPERase·In RNase Inhibitor (Invitrogen, AM2694) and 40mM DTT (Chen et al, 2018). Single-indexed libraries were prepared using the Chromium Single Cell 3' v3/v3.1 chemistry (10x Genomics) following the manufacturer's instructions. 6,000 cells were used per sample. The generated libraries were sequenced on an Illumina Novaseq (Illumina) system using the following transcript read lengths: 28bp for cell barcode and UMI, 8bp for sample index and 91bp for insert. 10,000 reads per cell were sequenced. scRNA-seq analysis was performed at Princess Margaret Genomics Centre (Toronto, Canada).
GEO Accession
GSM5224584