Krüppel-like factor 2 programs early exhausted T cell states and restrains antiviral immunity [ATAC-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 12 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
- 12 samples: 3 × ATAC_pMIG_in_vitro vs 3 × ATAC_pMIG-Klf2_in_vitro vs 3 × ATAC_sgNTC_P14_Cl13_D5.5 vs 3 × ATAC_sgKlf2_P14_Cl13_D5.5Groups 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
- Krüppel-like factor 2 programs early exhausted T cell states and restrains antiviral immunityImmunity · 2026
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 GSE288039_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 PRJNA1215756 and SRA study SRP559912. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8757822 ATAC_pMIG_in_vitro_1 ATAC_pMIG_in_vitro
- GSM8757823 ATAC_pMIG_in_vitro_2 ATAC_pMIG_in_vitro
- GSM8757824 ATAC_pMIG_in_vitro_3 ATAC_pMIG_in_vitro
- GSM8757825 ATAC_pMIG-Klf2_in_vitro_1 ATAC_pMIG-Klf2_in_vitro
- GSM8757826 ATAC_pMIG-Klf2_in_vitro_2 ATAC_pMIG-Klf2_in_vitro
- GSM8757827 ATAC_pMIG-Klf2_in_vitro_3 ATAC_pMIG-Klf2_in_vitro
- GSM8757828 ATAC_sgNTC_P14_Cl13_D5.5_1 ATAC_sgNTC_P14_Cl13_D5.5
- GSM8757829 ATAC_sgNTC_P14_Cl13_D5.5_2 ATAC_sgNTC_P14_Cl13_D5.5
- GSM8757830 ATAC_sgNTC_P14_Cl13_D5.5_3 ATAC_sgNTC_P14_Cl13_D5.5
- GSM8757831 ATAC_sgKlf2_P14_Cl13_D5.5_1 ATAC_sgKlf2_P14_Cl13_D5…
- GSM8757832 ATAC_sgKlf2_P14_Cl13_D5.5_2 ATAC_sgKlf2_P14_Cl13_D5…
- GSM8757833 ATAC_sgKlf2_P14_Cl13_D5.5_3 ATAC_sgKlf2_P14_Cl13_D5…
- GSE288114 Krüppel-like factor 2 programs early exhausted T cell states and restrains antiviral immunity [RNA-Seq] 32 samples shares ppel-like, exhausted, restrains, antiviral, programs, immunity, factor
- GSE267288 SWI/SNF chromatin-remodeling factor BAF60b restrains inflammatory diseases by affecting regulatory T cells migration [ATAC-Seq] 4 samples shares restrains, atac-seq, factor
- GSE285308 Functional memory T cells are derived from exhausted clones and expanded by checkpoint blockade [ATAC-Seq] 33 samples shares exhausted, atac-seq
- GSE337898 ATAC-seq profiling of lineage-traced exhausted and memory-like CD8+ T cell subsets during tumor progression 24 samples shares exhausted, atac-seq
- GSE269811 The antiviral nuclear body protein SP140 represses Ifnb1 transcript stabilization by the novel regulator RESIST [ATAC-seq] 12 samples shares antiviral, atac-seq
- GSE212506 Deletion of a state-specific PD-1 enhancer modulates exhausted T cell fate and function [ATAC-seq] 12 samples shares exhausted, atac-seq
- GSE296200 A20’s Linear Ubiquitin Binding Motif Restrains Pathogenic Activation of TH17/22 cells and IL-22 Driven Enteritis [ATAC-seq] 11 samples shares restrains, atac-seq
- GSE288889 ICOS limits memory-like properties and function of exhausted PD-1+ CD8 T cells [ATAC-seq] 10 samples shares exhausted, atac-seq
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.