 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Aug 31, 2021 |
| Title |
CD8-TRM-0 |
| Sample type |
SRA |
| |
|
| Source name |
Memory CD8 T cell
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
infection: LCMV-Armstrong
tissue: small intestine
cell type: CD8+CD44+GP33+
|
| Treatment protocol |
Six- to eight-week-old female C57BL/6 were purchased from Charles River. Mice were infected with 2 × 105 PFU/mouse LCMV-ARM by intraperitoneal injection to establish acute infection. Cells were stained with GP33 tetramer (1:100, provided by the NIH tetramer core facility) and the following antibodies against cell surface antigens for 30 min at 4 °C: anti-CD8a (clone 53-6.7, 1:200), anti-CD44 (clone 1 M7, 1:200), an-ti-CD62L (clone MEL-14, 1:200). TEM and TCM cells are sorted from spleen, seperated by CD62L. TRM cells are sorted from intraepithelial lymphocytes from small intestine.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Bulk RNA sequencing was performed according to a published Smart-seq2 protocol with minor modification. 1000 cells were used for each replicate. https://doi.org/10.1038/nprot.2014.006
Bulk RNA sequencing was performed according to a published Smart-seq2 protocol with minor modification. 1000 cells were used for each replicate. https://doi.org/10.1038/nprot.2014.006
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
CD8-TRM-0
|
| Data processing |
Reads were aligned to mouse reference genome mm10 using Star.
Genome_build: mm10
Supplementary_files_format_and_content: samples_counts.csv
|
| |
|
| Submission date |
Aug 10, 2021 |
| Last update date |
Aug 31, 2021 |
| Contact name |
Weiguo Cui |
| E-mail(s) |
[email protected]
|
| Phone |
312-503-0332
|
| Organization name |
Northwestern University
|
| Department |
Pathology
|
| Lab |
Cui
|
| Street address |
303 E Chicago Ave
|
| City |
Chicago |
| State/province |
IL |
| ZIP/Postal code |
60654 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE181783 |
Bulk RNA sequencing of TCM, TEM, and TRM from CD8+CD44+GP33+ T cells after LCMV infection |
| GSE181785 |
Single-cell transcriptomics reveals core regulatory programs that determine the heterogeneity of circulating and tissue-resident memory CD8+ T cells |
|
| Relations |
| BioSample |
SAMN20695207 |
| SRA |
SRX11705951 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
|
|
|
|
 |
