ICOS limits memory-like properties and function of exhausted PD-1+ CD8 T cells [ATAC-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 10 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
- 10 samples: 3 × ATAC-seq of CD8 Tpex sgIcos cells, vs 3 × ATAC-seq of CD8 Tex sgIcos cells, vs 2 × ATAC-seq of CD8 Tpex sgCtrl cells, vs 2 × ATAC-seq of CD8 Tex sgCtrl cells,Groups 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 costimulatory molecule ICOS limits memory-like properties and function of exhausted PD-1(+)CD8(+) T cellsImmunity · 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 GSE288889_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 PRJNA1219685 and SRA study SRP561822. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 4 replicated groups read from 10 sample titles; they account for 10 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.
- GSM8778058 ATAC-seq of CD8 Tpex sgCtrl cells, replicate 1 ATAC-seq of CD8 Tpex sg…
- GSM8778059 ATAC-seq of CD8 Tpex sgCtrl cells, replicate 2 ATAC-seq of CD8 Tpex sg…
- GSM8778060 ATAC-seq of CD8 Tpex sgIcos cells, replicate 1 ATAC-seq of CD8 Tpex sg…
- GSM8778061 ATAC-seq of CD8 Tpex sgIcos cells, replicate 2 ATAC-seq of CD8 Tpex sg…
- GSM8778062 ATAC-seq of CD8 Tpex sgIcos cells, replicate 3 ATAC-seq of CD8 Tpex sg…
- GSM8778063 ATAC-seq of CD8 Tex sgCtrl cells, replicate 1 ATAC-seq of CD8 Tex sgC…
- GSM8778064 ATAC-seq of CD8 Tex sgCtrl cells, replicate 2 ATAC-seq of CD8 Tex sgC…
- GSM8778065 ATAC-seq of CD8 Tex sgIcos cells, replicate 1 ATAC-seq of CD8 Tex sgI…
- GSM8778066 ATAC-seq of CD8 Tex sgIcos cells, replicate 2 ATAC-seq of CD8 Tex sgI…
- GSM8778067 ATAC-seq of CD8 Tex sgIcos cells, replicate 3 ATAC-seq of CD8 Tex sgI…
- GSE337898 ATAC-seq profiling of lineage-traced exhausted and memory-like CD8+ T cell subsets during tumor progression 24 samples shares cd8, memory-like, exhausted, atac-seq
- GSE281719 PD-1 Mediated Regulation of Unique Activated CD8+ T Cells by NK Cells in the Submandibular Gland [I15, I16] 60 samples shares pd-1, cd8
- GSE261642 PLPP1-deficiency-mediated ferroptosis induced by PD-1 signaling impairs antitumor activity of intratumoral CD8+ T cells I 23 samples shares pd-1, cd8
- GSE290839 PD-1 regulates tumor-infiltrating CD8+ T cells in both a cell-intrinsic and cell-extrinsic fashion [scRNA-seq] 20 samples shares pd-1, cd8
- GSE269347 Daunorubicin-induced T cell remodeling facilitates a high antitumor response to PD-1 blockade therapy by promoting the expansion and effector function of CD8+ prolifeating T cells [scRNA-Seq] 16 samples shares pd-1, cd8
- GSE320177 All -trans retinoic acid suppresses CD8+ T cell terminal exhaustion which enhances anti–PD-1 efficacy against glioblastoma [RNA-Seq] 12 samples shares pd-1, cd8
- GSE252358 Acetylcyssteine synergizes PD-1 blockers against colorectal cancer progression by promoting TCF1+PD1+CD8+ T cell differentiation in mice 10 samples shares pd-1, cd8
- GSE235005 Nutrient-driven histone code determines exhausted CD8+ T cell fates [ChIP-seq] 50 samples shares cd8, exhausted
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.