B cell deficiency induces cytotoxic memory CD8+ T cells during influenza-associated bacterial pneumonia
RNA-seq (gene expression) · mouse · 14 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
- 14 samples: 4 × WT, FF, biol vs 4 × WT, FFS, biol vs 3 × MuMT, FF, biol vs 3 × MuMT, FFS, biolGroups 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.
- Paper
- B cell deficiency induces cytotoxic memory CD8+ T cells during influenza-associated bacterial pneumoniaThe Journal of clinical investigation · 2025
Read the full summary ↓
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 GSE288913_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 PRJNA1220005 and SRA study SRP561969. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 4 replicated groups read from 14 sample titles; they account for 14 of them. 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.
- GSM8778561 MuMT, FF, biol repl 1 MuMT, FF, biol
- GSM8778562 MuMT, FF, biol repl 2 MuMT, FF, biol
- GSM8778563 MuMT, FF, biol repl 3 MuMT, FF, biol
- GSM8778564 MuMT, FFS, biol repl 1 MuMT, FFS, biol
- GSM8778565 MuMT, FFS, biol repl 2 MuMT, FFS, biol
- GSM8778566 MuMT, FFS, biol repl 3 MuMT, FFS, biol
- GSM8778567 WT, FF, biol repl 1 WT, FF, biol
- GSM8778568 WT, FF, biol repl 2 WT, FF, biol
- GSM8778569 WT, FF, biol repl 3 WT, FF, biol
- GSM8778570 WT, FF, biol repl 4 WT, FF, biol
- GSM8778571 WT, FFS, biol repl 1 WT, FFS, biol
- GSM8778572 WT, FFS, biol repl 2 WT, FFS, biol
- GSM8778573 WT, FFS, biol repl 3 WT, FFS, biol
- GSM8778574 WT, FFS, biol repl 4 WT, FFS, biol
- GSE306744 Pre-division TCF1 downregulation determines long-term effector and memory CD8 T cell fates [RNA-Seq] 31 samples shares cd8, memory
- GSE261642 PLPP1-deficiency-mediated ferroptosis induced by PD-1 signaling impairs antitumor activity of intratumoral CD8+ T cells I 23 samples shares cd8, deficiency
- GSE252337 Dysfunction of infiltrating cytotoxic CD8+ T cells within the graft promotes murine kidney allotransplant tolerance 16 samples shares cd8, cytotoxic
- GSE215759 Mettl3-dependent m6A modification is essential for effector differentiation and memory formation of CD8+ T cells [RNA-seq] 15 samples shares cd8, memory
- 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, cytotoxic
- GSE341988 Sequential pathogen exposure normalizes the brain neuroimmune microenvironment and reveals a tissue-resident memory CD8 T cell-microglia axis shaping adult neurogenesis 8 samples shares cd8, memory
- GSE342096 Distinct activation programs in naïve and memory CD8 T cells govern progeny stemness and effector persistence 37 samples shares cd8, memory
- GSE273195 H2A.Z regulates memory CD8+ T cell recall response [4] 34 samples shares cd8, memory
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.