A core stemness program in exhausted CD8+ T cells
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 24 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
- 24 samples: 4 × P14 CD8+ T cells sgControl, Day14, vs 4 × P14 CD8+ T cells sgZc3h12a, Day14, vs 4 × P14 CD8+ T cells sgBcor, Day14, vs 4 × P14 CD8+ T cells sgBcor/Zc3h12a, Day14,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
- BCOR and ZC3H12A suppress a core stemness program in exhausted CD8+ T cellsThe Journal of experimental medicine · 2025
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 GSE285187_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 PRJNA1201764 and SRA study SRP553234. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 4 replicated groups read from 24 sample titles; they account for 16 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.
- GSM8697616 P14 CD8+ T cells sgControl, Day14, Replicate1 P14 CD8+ T cells sgCont…
- GSM8697617 P14 CD8+ T cells sgControl, Day14, Replicate2 P14 CD8+ T cells sgCont…
- GSM8697618 P14 CD8+ T cells sgZc3h12a, Day14, Replicate1 P14 CD8+ T cells sgZc3h…
- GSM8697619 P14 CD8+ T cells sgZc3h12a, Day14, Replicate2 P14 CD8+ T cells sgZc3h…
- GSM8697620 P14 CD8+ T cells sgBcor, Day14, Replicate1 P14 CD8+ T cells sgBcor…
- GSM8697621 P14 CD8+ T cells sgBcor, Day14, Replicate2 P14 CD8+ T cells sgBcor…
- GSM8697622 P14 CD8+ T cells sgBcor/Zc3h12a, Day14, Replicate1 P14 CD8+ T cells sgBcor…
- GSM8697623 P14 CD8+ T cells sgBcor/Zc3h12a, Day14, Replicate2 P14 CD8+ T cells sgBcor…
- GSM8697637 P14 CD8+ T cells sgControl, Day14, Replicate1 P14 CD8+ T cells sgCont…
- GSM8697638 P14 CD8+ T cells sgControl, Day14, Replicate2 P14 CD8+ T cells sgCont…
- GSM8697639 P14 CD8+ T cells sgZc3h12a, Day14, Replicate1 P14 CD8+ T cells sgZc3h…
- GSM8697640 P14 CD8+ T cells sgZc3h12a, Day14, Replicate2 P14 CD8+ T cells sgZc3h…
- GSM8697641 P14 CD8+ T cells sgBcor, Day14, Replicate1 P14 CD8+ T cells sgBcor…
- GSM8697642 P14 CD8+ T cells sgBcor, Day14, Replicate2 P14 CD8+ T cells sgBcor…
- GSM8697643 P14 CD8+ T cells sgBcor/Zc3h12a, Day14, Replicate1 P14 CD8+ T cells sgBcor…
- GSM8697644 P14 CD8+ T cells sgBcor/Zc3h12a, Day14, Replicate2 P14 CD8+ T cells sgBcor…
- GSM8697648 P14 CD8+ T cells sgControl, Day14
- GSM8697649 P14 CD8+ T cells sgBcor, Day14
- GSM8697650 P14 CD8+ T cells sgZc3h12a, Day14
- GSM8697651 P14 CD8+ T cells sgBcor/Zc3h12a, Day14
- GSM8697652 P14 CD8+ T cells sgControl, Day14 post infection
- GSM8697653 P14 CD8+ T cells sgBcor, Day14 post infection
- GSM8697654 P14 CD8+ T cells sgZc3h12a, Day14 post infection
- GSM8697655 P14 CD8+ T cells sgBcor/Zc3h12a, Day14 post infection
- GSE342096 Distinct activation programs in naïve and memory CD8 T cells govern progeny stemness and effector persistence 37 samples shares cd8, stemness, program
- GSE262842 Antitumor progenitor exhausted CD8 T cells are sustained with TCR engagement [ATACseq] 24 samples shares cd8, exhausted
- GSE235005 Nutrient-driven histone code determines exhausted CD8+ T cell fates [ChIP-seq] 50 samples shares cd8, exhausted
- GSE337898 ATAC-seq profiling of lineage-traced exhausted and memory-like CD8+ T cell subsets during tumor progression 24 samples shares cd8, exhausted
- GSE255887 HDAC1 controls the generation and maintenance of effector-like CD8+ T cells during chronic viral infection 76 samples shares cd8
- GSE281719 PD-1 Mediated Regulation of Unique Activated CD8+ T Cells by NK Cells in the Submandibular Gland [I15, I16] 60 samples shares cd8
- GSE261250 Gfi1 controls the formation of effector CD8+ T cells during chronic infection and cancer 47 samples shares cd8
- GSE318514 Organ injury in systemic autoimmunity is mediated by stem-like CD8 T cells arising from tissue-draining lymph nodes 45 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.