Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for effector Treg cell differentiation [ATAC-Seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 30 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
- 30 samples: 30 samples, each with a distinct title — no replicated groupsGroups 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
- Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for effector Treg cell differentiationImmunity · 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 GSE267881_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 PRJNA1113587 and SRA study SRP508728. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 30 sample titles: 30 distinct titles with little repetition. 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.
- GSM8281023 WT Treg_1 (ATAC-seq)
- GSM8281024 WT Treg_2 (ATAC-seq)
- GSM8281025 BATFKO Treg_1 (ATAC-seq)
- GSM8281026 BATFKO Treg_2 (ATAC-seq)
- GSM8281027 WT Tconv_1 (ATAC-seq)
- GSM8281028 WT Tconv_2 (ATAC-seq)
- GSM8281029 WT Treg_3 (omniATAC-seq) (Foxp3R397W control)
- GSM8281030 WT Treg_4 (omniATAC-seq) (Foxp3R397W control)
- GSM8281031 Foxp3R397W Treg_1 (omniATAC-seq)
- GSM8281032 Foxp3R397W Treg_2 (omniATAC-seq)
- GSM8281033 WT Treg_5 (omniATAC-seq) (Foxp3KO control)
- GSM8281034 WT Treg_6 (omniATAC-seq) (Foxp3KO control)
- GSM8281035 Foxp3KO Treg_1 (omniATAC-seq)
- GSM8281036 Foxp3KO Treg_2 (omniATAC-seq)
- GSM8281037 WT cTreg_1 (ATAC-seq)
- GSM8281038 WT cTreg_2 (ATAC-seq)
- GSM8281039 WT eTreg_1 (ATAC-seq)
- GSM8281040 WT eTreg_2 (ATAC-seq)
- GSM8281041 WT Tnaive_1 (ATAC-seq)
- GSM8281042 WT Tnaive_2 (ATAC-seq)
- GSM8281043 WT Teff_1 (ATAC-seq)
- GSM8281044 WT Teff_2 (ATAC-seq)
- GSM9209816 mockRV_DKOTreg_1 (omniATAC-seq)
- GSM9209817 mockRV_DKOTreg_2 (omniATAC-seq)
- GSM9209818 Foxp3RV_DKOTreg_1 (omniATAC-seq)
- GSM9209819 Foxp3RV_DKOTreg_2 (omniATAC-seq)
- GSM9209820 BATFRV_DKOTreg_1 (omniATAC-seq)
- GSM9209821 BATFRV_DKOTreg_2 (omniATAC-seq)
- GSM9209822 Foxp3BATFRV_DKOTreg_1 (omniATAC-seq)
- GSM9209823 Foxp3BATFRV_DKOTreg_2 (omniATAC-seq)
- GSE267882 Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for effector Treg cell differentiation [ChIP-Seq] 34 samples shares foxp3, batf, cis-regulatory, cooperatively, programs, effector, direct
- GSE267884 Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for effector Treg cell differentiation [scMultiome] 16 samples shares foxp3, batf, cis-regulatory, cooperatively, programs, effector, direct
- GSE267967 Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for functional differentiation of Treg cells [RNA-seq] 26 samples shares foxp3, batf, cis-regulatory, cooperatively, programs, direct
- GSE281498 The transcription factor BATF pioneers the differentiation program of cytolytic effector CD8+ T cells through the direct interaction with IRF4 (ATAC-seq) 20 samples shares batf, effector, atac-seq, direct
- GSE281499 The transcription factor BATF pioneers the differentiation program of cytolytic effector CD8+ T cells through the direct interaction with IRF4 (CUT&RUN) 50 samples shares batf, effector, direct
- GSE281500 The transcription factor BATF pioneers the differentiation program of cytolytic effector CD8+ T cells through the direct interaction with IRF4 (RNA-seq) 10 samples shares batf, effector, direct
- GSE268623 Dynamic Foxp3-chromatin interaction controls tunable Treg cell function [Cut&Run Foxp3 Batf Ets1] 24 samples shares foxp3, batf
- GSE245100 Dynamic Foxp3-chromatin interaction controls tunable Treg cell function [Cut&Run Foxp3 Batf] 12 samples shares foxp3, batf
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.