|
| Status |
Public on Jan 09, 2020 |
| Title |
ATAC-seq profiling of influenza-specific memory CD8 T cells in the lung airways (BAL), lung interstitium (LR), lung vasculature (LV), and spleen |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
To examine differences in chromatin accessibility of resident memory CD8 T cells in the lung, influenza nucleoprotein-specific CD8 T cells from the airways , lung interstitium, and spleen were FACS sorted and ATAC-seq performed.
|
| |
|
| Overall design |
C57Bl/6 mice were infected with influenza x31 and rested for 35 days to establish T cell memory. Five minutes prior to euthanasia mice were injected with anti-CD45.2-PE to discriminate between tissue resident and circulating cells, and cells were isolated from the airways by bronchoalveolar lavage, from the lung parechyma by enzymatic digestion, and from the spleen by mechanical disruption. Cells were sorted on CD8+ CD44Hi FluNP 366-374 Db tetramer+ populations, and cells from the airways and parenchyma were further sorted on intravital label negative (i.e. tissue resident) cells. This cohort was used as a replicate cohort.
|
| |
|
| Contributor(s) |
Scharer CD, Kohlmeier JE |
| Citation(s) |
31953534 |
| |
| Submission date |
Aug 07, 2019 |
| Last update date |
Apr 09, 2020 |
| Contact name |
Chris Scharer |
| E-mail(s) |
cdschar@emory.edu
|
| Organization name |
Emory University
|
| Department |
Microbiology and Immunology
|
| Lab |
Chris Scharer
|
| Street address |
1510 Clifton Rd, Suite 3086A
|
| City |
Atlanta |
| State/province |
GA |
| ZIP/Postal code |
30322 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
| Samples (12)
|
|
| This SubSeries is part of SuperSeries: |
| GSE118112 |
The lung microenvironment results in unique gene expression and epigenomic programs in airway and parenchyma resident memory CD8 T cells |
|
| Relations |
| BioProject |
PRJNA559141 |
| SRA |
SRP217691 |
Less...
More...