Caspase-11 Mediated Hyperinflammation Impairs CD8⁺ T Cell Immunity and Viral Clearance in Severe SARS-CoV-2 Infection
RNA-seq (gene expression) · mouse · 26 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 26 samples: 18 distinct titles, 2 of them repeatedGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE329370_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1458724 and SRA study SRP695664. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 26 sample titles: 18 distinct titles with little repetition. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM9702547 10
- GSM9702548 11
- GSM9702549 13
- GSM9702550 16
- GSM9702551 18
- GSM9702552 1
- GSM9702553 5
- GSM9702554 6
- GSM9702555 CREFLOX-10
- GSM9702556 CREFLOX-12
- GSM9702557 CREFLOX-14
- GSM9702558 CREFLOX-15
- GSM9702559 CREFLOX-16
- GSM9702560 CreControls-1
- GSM9702561 CreControls-2
- GSM9702562 CreControls-5
- GSM9702563 CreControls-6
- GSM9702564 CreControls-7
- GSM9702619 CASP11-1-lung-day-4
- GSM9702620 CASP11-2-lung-day-4
- GSM9702621 CASP11-3-lung-day-4
- GSM9702622 CASP11-4-lung-day-4
- GSM9702623 WT1-lung-day-4
- GSM9702624 WT2-lung-day-4
- GSM9702625 WT3-lung-day-4
- GSM9702626 WT4-lung-day-4
- GSE261642 PLPP1-deficiency-mediated ferroptosis induced by PD-1 signaling impairs antitumor activity of intratumoral CD8+ T cells I 23 samples shares cd8, mediated, impairs
- GSE318514 Organ injury in systemic autoimmunity is mediated by stem-like CD8 T cells arising from tissue-draining lymph nodes 45 samples shares cd8, mediated, immunity
- GSE316541 α2,6-Sialoglycan-regulated anti-tumor immunity of tumor-infiltrating CD8+ T cells in the tumor microenvironment [CD8+T] 27 samples shares cd8, immunity
- GSE234974 Pan-cancer mapping of single CD8+ T cell profiles reveals a TCF1:CXCR6 axis regulating CD28 co-stimulation and anti-tumor immunity I 24 samples shares cd8, immunity
- GSE299133 Host MTDH orchestrates liver lipid metabolism and CD8+ T cells to suppress antitumor immunity [Hepatocytes] 18 samples shares cd8, immunity
- GSE277610 Endothelial PD-L1 brakes CD8+ T cell exhaustion, empowering anti-tumor immunity in non-small cell lung cancer 17 samples shares cd8, immunity
- GSE207029 Blockade of avb8 integrin synergizes with checkpoint inhibition to enhance anti-tumor immunity through Cxcl9-dependent augmentation of CD8+ T cell cytotoxicity 12 samples shares cd8, immunity
- GSE316540 α2,6-Sialoglycan-regulated anti-tumor immunity of tumor-infiltrating CD8+ T cells in the tumor microenvironment 9 samples shares cd8, immunity
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.