The CD8+ T cell tolerance checkpoint triggers a transcriptionally and epigenetically distinct differentiation state defined by protein translation defects
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 30 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Mus musculus (mouse)
- Samples
- 30 samples: 30 samples, each with a distinct title — no replicated groupsGroups 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
- The CD8(+) T cell tolerance checkpoint triggers a distinct differentiation state defined by protein translation defectsImmunity · 2024
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 GSE157232_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA660477 and SRA study SRP279503. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 30 sample titles: 30 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.
- GSM4759552 Immunity 36hr (scRNAseq)
- GSM4759553 Tolerance 12hr (scRNAseq)
- GSM4759554 Tolerance 36hr (scRNAseq)
- GSM4759555 Naive 12hr (scRNAseq)
- GSM4759556 Tolerance 60hr (scRNAseq)
- GSM4759557 Immunity 12hr (scRNAseq)
- GSM4759558 Immunity 60hr (scRNAseq)
- GSM4759559 Arm/Cl13 D20 #1 (scRNAseq)
- GSM4759560 Arm/Cl13 D20 #2 (scRNAseq)
- GSM6862098 Naïve replicate 1 (ATACseq)
- GSM6862099 Naïve replicate 2 (ATACseq)
- GSM6862100 Tolerance replicate 1 (ATACseq)
- GSM6862101 Tolerance replicate 2 (ATACseq)
- GSM6862102 Effector replicate 1 (ATACseq)
- GSM6862103 Effector replicate 2 (ATACseq)
- GSM7051817 Naive_rep1 (RNAseq)
- GSM7051818 Naive_rep2 (RNAseq)
- GSM7051819 Naive_rep3 (RNAseq)
- GSM7051820 Tol_rep1 (RNAseq)
- GSM7051821 Tol_rep2 (RNAseq)
- GSM7051822 Tol_rep3 (RNAseq)
- GSM7051823 LM33_rep1 (RNAseq)
- GSM7051824 LM33_rep2 (RNAseq)
- GSM7051825 LM33_rep3 (RNAseq)
- GSM7051826 OVAp_rep1 (RNAseq)
- GSM7051827 OVAp_rep2 (RNAseq)
- GSM7051828 OVAp_rep3 (RNAseq)
- GSM7051829 LMOVA_rep1 (RNAseq)
- GSM7051830 LMOVA_rep2 (RNAseq)
- GSM7051831 LMOVA_rep3 (RNAseq)
- GSE329774 Metabolically and epigenetically reprogrammed splenic TRNP1hiCD8+ T cells exacerbate liver fibrosis 93 samples shares cd8, epigenetically
- GSE223164 Osr2 functions as a biomechanical checkpoint to aggravate CD8+ T cell exhaustion in tumor 49 samples shares cd8, checkpoint
- GSE342312 T-bet and Runx3 orchestrate effector CD8 T cell differentiation and lineage fidelity through cooperative and distinct chromatin regulatory mechanisms [Multi-omics] 40 samples shares cd8, distinct
- GSE342096 Distinct activation programs in naïve and memory CD8 T cells govern progeny stemness and effector persistence 37 samples shares cd8, distinct
- GSE270050 Expansion of Tumor-Infiltrating CD8+ T Cell Clonotypes Occurs in the Spleen in Response to Immune Checkpoint Blockade 29 samples shares cd8, checkpoint
- GSE252337 Dysfunction of infiltrating cytotoxic CD8+ T cells within the graft promotes murine kidney allotransplant tolerance 16 samples shares cd8, tolerance
- 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, checkpoint
- GSE223157 Osr2 functions as a mechanical checkpoint to augment CD8+ T cell exhaustion [YODA1_vs_DMSO_ATAC_CD8] 12 samples shares cd8, checkpoint
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.