GSE87633   Details

GSE Accession GSE87633
Title Organism-level analysis of vaccination reveals networks of protection across tissues
Submission Date 10/5/16
Last Update Date 9/21/17
Pubmed ID
Experiment Type Expression profiling by high throughput sequencing
Contributor Nicolas,,Chevrier; Motohiko Kadoki
Contact Name
Contact E-mail
Organization Name
Country
Organism Mus musculus
Organism ID 10090
Organism Synonym house mouse; mouse
Summary Whole organs or CD8+ T cell populations sorted by FACS from tissues were isolated at various time points following vaccination with Vaccinia virus strain Modified Vaccinia Ankara (MVA; subcutaneously) and/or infection with strain Western Reserve (WR; intranasally). Total RNA was extracted from whole organs or sorted cell populations, RNA-seq libraries were prepared with a custom protocol, and sequenced at an average depth of ~5M/sample.
Overall Design We compared three types of immune responses in vivo: (1) vaccinating (MVA only; 10^7 PFUs subcutaneously), (2) lethal (WR only; 10^7 PFUs intranasally), and (3) protective (MVA followed by WR challenge; same doses and routes as in 1 and 2, respectively). Overall, 6 datasets were generated from the following experiments and samples:; (i) Whole-tissue samples from MVA, WR, MVA+WR cohorts with WR challenge at day 7, 21 (Exp. 1), or 80 (Exp. 2) in wild-type mice;; (ii) Whole-tissue samples from MVA+WR at day 21 in wild-type versus knockout animals: Tcra-/- (Exp. 3), and Ifng-/-, Il22-/-, and Csf2-/- (Exp. 5);; (iii) Sorted CD8+ T cell populations profiled from tissues of MVA-vaccinated (day 21) and control mice with (Exp. 6) or without (Exp. 4) intravascular staining (anti-CD45-PE antibody) to distinguish parenchyma-associated from vasculature-associated cells.
Platform ID
Timepoint Count 28
Timepoints gsm: [_m138, _m140, _m4, _m17, _m18, _m54, _m55, _m77, _m79, _m102, _m104, _m25, _m28, _m61, _m86, _m87, _m110, _m111, _m21, _m22, _m58, _m59, _m81, _m84, _m106, _m107, _d21, _d80]
Disease
Disease ID