CD69 regulates the tissue dynamics of epigenetically imprinted memory CD4+ T cells [RNA-seq_ATAC-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 22 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
- 22 samples: 8 conditions, mostly in duplicateGroups 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.
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 GSE325227_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 PRJNA1439229 and SRA study SRP684773. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 8 replicated groups read from 22 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.
- GSM9598148 ATAC_OTII_CirculatingExTcirc_rep1 ATAC_OTII_CirculatingEx…
- GSM9598149 ATAC_OTII_CirculatingExTcirc_rep2 ATAC_OTII_CirculatingEx…
- GSM9598150 ATAC_OTII_TissueExTcirc_rep1 ATAC_OTII_TissueExTcirc
- GSM9598151 ATAC_OTII_TissueExTcirc_rep2 ATAC_OTII_TissueExTcirc
- GSM9598152 ATAC_OTII_CirculatingExTRM_rep1 ATAC_OTII_CirculatingEx…
- GSM9598153 ATAC_OTII_CirculatingExTRM_rep2 ATAC_OTII_CirculatingEx…
- GSM9598154 TissueExTRM_rep1_ATAC
- GSM9598155 TissueExTRM_rep2_ATAC
- GSM9598156 CirculatingExTRM_rep1_ATAC
- GSM9598157 CirculatingExTRM_rep2_ATAC
- GSM9598158 EndogenousExTcirc_rep1_ATAC
- GSM9598159 EndogenousExTcirc_rep2_ATAC
- GSM9598160 TRM_rep1 TRM
- GSM9598161 TRM_rep2 TRM
- GSM9598162 TissueExTcirc_rep1 TissueExTcirc
- GSM9598163 TissueExTcirc_rep2 TissueExTcirc
- GSM9598164 CirculatingExTcirc_rep1 CirculatingExTcirc
- GSM9598165 CirculatingExTcirc_rep2 CirculatingExTcirc
- GSM9598166 TissueExTRM_rep1 TissueExTRM
- GSM9598167 TissueExTRM_rep2 TissueExTRM
- GSM9598168 CirculatingExTRM_rep1 CirculatingExTRM
- GSM9598169 CirculatingExTRM_rep2 CirculatingExTRM
- GSE222996 The immune landscape of the “deregulated host response” in sepsis: newly emerging MDSCs with high expression of CD47 leads to B cell suppression via App-CD74 signaling [RNA-seq] 61 samples shares cd4, rna-seq
- GSE227844 MicroRNA-150 controls experimental autoimmune encephalomyelitis by regulating CD4 T cell differentiation and function [RNA-seq II] 44 samples shares cd4, rna-seq
- GSE325329 Transcriptomic profiling of macrophages that phagocytosed apoptotic Treg or conventional CD4⁺ T (Tconv) cells under different polarization conditions [RNA-Seq] 28 samples shares cd4, rna-seq
- GSE217350 RNA-seq of resting and stimulated CD4+ and CD8+ T cells from wt and Raptor-deleted mice 27 samples shares cd4, rna-seq
- GSE302620 Oncolytic virus therapy mobilizes tumor-resident CD4+ bystander T cells to restore systemic anti-microbial immunity [ATAC-seq] 16 samples shares cd4, atac-seq
- GSE270932 Nasal CD4⁺ tissue-resident memory T cells provide cross-protective immunity to influenza 12 samples shares cd4, memory
- GSE313761 Single-cell screens identify ADAM12 as a fibroblast checkpoint impeding anti-tumor immunity - scRNA-seq of Adam12CKO Mouse Model CD45- cells 11 samples shares cd4, rna-seq
- GSE250576 ATAC-seq of Satb1 conditional KO in CD4+ naïve T cells reveals epigenetic role of Satb1 in developing Th17 T cells by controlling the accessibility of Il2, thereby inhibiting IL-2 signaling in the initial stages of T cell differentiation. 10 samples shares cd4, 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.