Osr2 functions as a biomechanical checkpoint to aggravate CD8+ T cell exhaustion in tumor
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 49 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
- 49 samples: 19 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
- Osr2 functions as a biomechanical checkpoint to aggravate CD8(+) T cell exhaustion in tumorCell · 2024
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 GSE223164_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 PRJNA925156 and SRA study SRP418129. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 49 samples.
How we read this: 19 replicated groups read from 49 sample titles; they account for 49 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.
- GSM6940429 ATAC_WT_DMSO_rep1 ATAC_WT_DMSO
- GSM6940430 ATAC_WT_DMSO_rep2 ATAC_WT_DMSO
- GSM6940431 ATAC_WT_DMSO_rep3 ATAC_WT_DMSO
- GSM6940432 ATAC_WT_Yoda1_rep1 ATAC_WT_Yoda1
- GSM6940433 ATAC_WT_Yoda1_rep2 ATAC_WT_Yoda1
- GSM6940434 ATAC_WT_Yoda1_rep3 ATAC_WT_Yoda1
- GSM6940435 ATAC_Piezo1-KO_DMSO_rep1 ATAC_Piezo1-KO_DMSO
- GSM6940436 ATAC_Piezo1-KO_DMSO_rep2 ATAC_Piezo1-KO_DMSO
- GSM6940437 ATAC_Piezo1-KO_DMSO_rep3 ATAC_Piezo1-KO_DMSO
- GSM6940438 ATAC_Piezo1-KO_Yoda1_rep1 ATAC_Piezo1-KO_Yoda1
- GSM6940439 ATAC_Piezo1-KO_Yoda1_rep2 ATAC_Piezo1-KO_Yoda1
- GSM6940440 ATAC_Piezo1-KO_Yoda1_rep3 ATAC_Piezo1-KO_Yoda1
- GSM6940449 Flag-Osr2_Osr2OE_rep1 Flag-Osr2_Osr2OE
- GSM6940450 Flag-Osr2_Osr2OE_rep2 Flag-Osr2_Osr2OE
- GSM6940451 Flag-Osr2_Osr2OE_rep3 Flag-Osr2_Osr2OE
- GSM6940452 IgG_rep1 IgG
- GSM6940453 IgG_rep2 IgG
- GSM6940454 RNA_WT_rep1 RNA_WT
- GSM6940455 RNA_WT_rep2 RNA_WT
- GSM6940456 RNA_WT_rep3 RNA_WT
- GSM6940457 RNA_Osr2-KO_rep1 RNA_Osr2-KO
- GSM6940458 RNA_Osr2-KO_rep2 RNA_Osr2-KO
- GSM6940459 RNA_Osr2-KO_rep3 RNA_Osr2-KO
- GSM6940460 scRNA_OT-I_rep1 scRNA_OT-I
- GSM6940461 scRNA_OT-I_rep2 scRNA_OT-I
- GSM6940462 RNA_WT_DMSO_rep1 RNA_WT_DMSO
- GSM6940463 RNA_WT_DMSO_rep2 RNA_WT_DMSO
- GSM6940464 RNA_WT_DMSO_rep3 RNA_WT_DMSO
- GSM6940465 RNA_WT_Yoda1_rep1 RNA_WT_Yoda1
- GSM6940466 RNA_WT_Yoda1_rep2 RNA_WT_Yoda1
- GSM6940467 RNA_WT_Yoda1_rep3 RNA_WT_Yoda1
- GSM6940468 ATAC_Vector_rep1 ATAC_Vector
- GSM6940469 ATAC_Vector_rep2 ATAC_Vector
- GSM6940470 ATAC_Osr2OE_rep1 ATAC_Osr2OE
- GSM6940471 ATAC_Osr2OE_rep2 ATAC_Osr2OE
- GSM6940472 RNA_Vector_rep1 RNA_Vector
- GSM6940473 RNA_Vector_rep2 RNA_Vector
- GSM6940474 RNA_Vector_rep3 RNA_Vector
- GSM6940475 RNA_Osr2OE_rep1 RNA_Osr2OE
- GSM6940476 RNA_Osr2OE_rep2 RNA_Osr2OE
+ 9 more — browse all 49 samples with per-sample file links →
- GSE223157 Osr2 functions as a mechanical checkpoint to augment CD8+ T cell exhaustion [YODA1_vs_DMSO_ATAC_CD8] 12 samples shares osr2, cd8, checkpoint, exhaustion, functions
- GSE270050 Expansion of Tumor-Infiltrating CD8+ T Cell Clonotypes Occurs in the Spleen in Response to Immune Checkpoint Blockade 29 samples shares cd8, checkpoint
- GSE277610 Endothelial PD-L1 brakes CD8+ T cell exhaustion, empowering anti-tumor immunity in non-small cell lung cancer 17 samples shares cd8, exhaustion
- GSE310452 Sustained A2AR expression and loss paradoxically promote CD8+ T cell exhaustion 12 samples shares cd8, exhaustion
- 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
- GSE307051 Active aldehydes accelerate CD8+ T cell exhaustion by metabolic alteration in the tumor microenvironment 3 samples shares cd8, exhaustion
- GSE157232 The CD8+ T cell tolerance checkpoint triggers a transcriptionally and epigenetically distinct differentiation state defined by protein translation defects 30 samples shares cd8, checkpoint
- GSE269676 3D genome of CD8+ T cells reveals IRF8-mediated exhaustion in cancer 18 samples shares cd8, exhaustion
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.