title: GSM5776510: HTO d15 WT #1; Mus musculus; RNA-Seq
library_construction_protocol: For chronic LCMV infections, mice were infected with 2 x 106 PFU of LCMV clone 13 intravenously and depleted of CD4 T cells in two doses of anti-CD4 (clone GK1.5): 500ug i.v. 4 days prior to infection and 250ug i.p. 3 days post infection. CD8+ T cells were magnetically purified from spleens of CD4CreER; Stk40loxp/loxp (Stk40 ko) and CD4+/+; Stk40loxp/loxp (WT) LCMV-cl13 infected mice at d15 and d22 after infection. LCMV-specific cells were enriched using Dextramer labeling followed by Miltenyi magnetic purification with anti-PE microbeads. Dextramer labeling was carried out in accordance with Immudex protocol. Cell capture and scRNAseq-, feature-, and TCRseq- library constructions were carried out using the 10X Chromium Controller and the Chromium Next GEM Single Cell 5' Reagent Kits v2 (Dual Index) in accordance with the manufacture's protocol (CG000330 Rev A). Prior to loading into the chromium controller, cells were washed once with PBS and resuspended in PBS at 700-1200 cells/ul for a target cell recovery of 7000 cells.