Longitudinal transcriptomic profiling of splenic CD8 T cells in Nr4a1-KO mice during Mtb infection
RNA-seq (gene expression) · mouse · 24 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
- 24 samples: 8 conditions, mostly in triplicateGroups 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
- NR4A1 limits CD8⁺ T Cell effector responses and protection in tuberculosisbioRxiv : the preprint server for biology · 2026
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 GSE313371_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 PRJNA1379344 and SRA study SRP654323. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 8 replicated groups read from 24 sample titles; they account for 24 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.
- GSM9367109 B6129, Uninfected, 1 B6129, Uninfected,
- GSM9367110 B6129, Uninfected, 2 B6129, Uninfected,
- GSM9367111 B6129, Uninfected, 3 B6129, Uninfected,
- GSM9367112 Nr4a1-KO, Uninfected, 1 Nr4a1-KO, Uninfected,
- GSM9367113 Nr4a1-KO, Uninfected, 2 Nr4a1-KO, Uninfected,
- GSM9367114 Nr4a1-KO, Uninfected, 3 Nr4a1-KO, Uninfected,
- GSM9367115 B6129, Infected, 2wk, 1 B6129, Infected, 2wk,
- GSM9367116 B6129, Infected, 2wk, 2 B6129, Infected, 2wk,
- GSM9367117 B6129, Infected, 2wk, 3 B6129, Infected, 2wk,
- GSM9367118 Nr4a1-KO, Infected, 2wk, 1 Nr4a1-KO, Infected, 2wk,
- GSM9367119 Nr4a1-KO, Infected, 2wk, 2 Nr4a1-KO, Infected, 2wk,
- GSM9367120 Nr4a1-KO, Infected, 2wk, 3 Nr4a1-KO, Infected, 2wk,
- GSM9367121 Nr4a1-KO, Infected, 4wk, 1 Nr4a1-KO, Infected, 4wk,
- GSM9367122 Nr4a1-KO, Infected, 4wk, 2 Nr4a1-KO, Infected, 4wk,
- GSM9367123 Nr4a1-KO, Infected, 4wk, 3 Nr4a1-KO, Infected, 4wk,
- GSM9367124 B6129, Infected, 4wk, 1 B6129, Infected, 4wk,
- GSM9367125 B6129, Infected, 4wk, 2 B6129, Infected, 4wk,
- GSM9367126 B6129, Infected, 4wk, 3 B6129, Infected, 4wk,
- GSM9367127 Nr4a1-KO, Infected, 8wk, 1 Nr4a1-KO, Infected, 8wk,
- GSM9367128 Nr4a1-KO, Infected, 8wk, 2 Nr4a1-KO, Infected, 8wk,
- GSM9367129 Nr4a1-KO, Infected, 8wk, 3 Nr4a1-KO, Infected, 8wk,
- GSM9367130 B6129, Infected, 8wk, 1 B6129, Infected, 8wk,
- GSM9367131 B6129, Infected, 8wk, 2 B6129, Infected, 8wk,
- GSM9367132 B6129, Infected, 8wk, 3 B6129, Infected, 8wk,
- GSE329774 Metabolically and epigenetically reprogrammed splenic TRNP1hiCD8+ T cells exacerbate liver fibrosis 93 samples shares cd8, splenic
- GSE329370 Caspase-11 Mediated Hyperinflammation Impairs CD8⁺ T Cell Immunity and Viral Clearance in Severe SARS-CoV-2 Infection 26 samples shares cd8
- GSE255887 HDAC1 controls the generation and maintenance of effector-like CD8+ T cells during chronic viral infection 76 samples shares cd8
- GSE261250 Gfi1 controls the formation of effector CD8+ T cells during chronic infection and cancer 47 samples shares cd8
- GSE296763 Mitochondrial respiration is necessary for CD8 T cell proliferation and cell fate 99 samples shares cd8
- GSE334845 Discovery of Tcf7 regulators with clonally-resolved CRISPR screens identifies Trim28 as a mediator of CD8 T cell differentiation in tumors [RNA-Seq] 86 samples shares cd8
- GSE302682 Sleeping Beauty mutagenesis identifies BACH2 and other regulators promoting CD8+ T cell persistence and effector function under tumor-associated chronic antigen stimulation - RNAseq 66 samples shares cd8
- GSE337601 XCR1+ and CD11b+ migratory dendritic cells cooperate for the crosspriming of intratumoral CD8+ T cells with a tissue-resident memory phenotype [RNA-Seq] 36 samples shares cd8
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.