title: GSM8577314: Cage Change, mRNA-derived cDNA; Mus musculus; RNA-Seq
library_construction_protocol: Ileum samples were harvested from 2 mock infected mice, 2 mock infected mice with cage change, 2 infected mice, and 2 infected mice with cage change. Tissue were digested with DTT and collagenase. Cells were filtered, and cells from 2 mice per condition pooled equally. Afterwards cells were subjected to debris and dead cell removal. Cell were checked for viability using a hematocytometer and 25,000 cells were loaded into a Chromium Controller (10X Genomics). Library was prepared using Chromium Next GEM Single Cell 5' Kit v2, 16 rxns PN-1000263 according to manufacturer's protocol and counted using a Bio-Rad TC20 automated cell counter. Single cells were then encapsulated into emulsion droplets using Chromium Controller (10x Genomics) on a Chromium Next GEM Chip K Single Cell Kit, 16 rxns PN-1000287. scRNA-seq libraries were constructed using Chromium 5' Single Cell Library Construction Kit, 16 rxns PN-1000190 according to the manufacturer's protocol. Amplified cDNA was evaluated on a Agilent BioAnalyzer 2100 and indexed with the Dual Index Kit TT Set A, 96 rxns PN-1000215.