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GEO help: Mouse over screen elements for information. |
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| Status |
Public on May 31, 2023 |
| Title |
Longitudinal single cell transcriptional and epigenetic mapping of effector, memory, and exhausted CD8 T cells reveals shared biological circuits across distinct cell fates [scRNA-seq and scATAC-seq coAssay] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Longitudinal scRNA-seq and scATAC-seq from LCMV-specific P14 CD8 T cells in LCMV-Armstrong and LCMV-Clone 13 infection
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| Overall design |
LCMV-specific P14 cells were sorted from mice infected with LCMV-Arm or LCMV-Cl13 on days 8, 15, or 30 post infection. An additional group of mice was treated with anti-PDL1 every three days starting at day 16; cells were sorted at day 30. scRNA-seq and scATAC-seq libraries were prepared using 10x Genomics coAssay kits.
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| Contributor(s) |
Giles J, Wherry EJ |
| Citation(s) |
37315535 |
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| Submission date |
Apr 23, 2023 |
| Last update date |
May 28, 2025 |
| Contact name |
E JOHN WHERRY |
| Organization name |
University of Pennsylvania
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| Department |
Systems Pharmacology and Translational Therapeutics,Institute for Immunology
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| Street address |
421 Curie Blvd,354 BRB II/III
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| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (16)
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| GSM7220516 |
LCMV2: ArmD8, scATAC |
| GSM7220517 |
LCMV3: ArmD15, scRNA |
| GSM7220518 |
LCMV3: ArmD15, scATAC |
| GSM7220519 |
LCMV4: ArmD30, scRNA |
| GSM7220520 |
LCMV4: ArmD30, scATAC |
| GSM7220521 |
LCMV5: Cl13D8, scRNA |
| GSM7220522 |
LCMV5: Cl13D8, scATAC |
| GSM7220523 |
LCMV6: Cl13D15, scRNA |
| GSM7220524 |
LCMV6: Cl13D15, scATAC |
| GSM7220525 |
LCMV7: Cl13D30, scRNA |
| GSM7220526 |
LCMV7: Cl13D30, scATAC |
| GSM7220527 |
LCMV8: Cl13D30+aPDL1, scRNA |
| GSM7220528 |
LCMV8: Cl13D30+aPDL1, scATAC |
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| This SubSeries is part of SuperSeries: |
| GSE211411 |
Distinct SWI/SNF chromatin remodelling complexes act differentially to maintain stem-like exhausted CD8 T cells. |
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| Relations |
| BioProject |
PRJNA960837 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE230363_RAW.tar |
9.7 Gb |
(http)(custom) |
TAR (of BED, H5, MTX, TBI, TSV) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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