Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for functional differentiation of Treg cells [RNA-seq]
Single-cell RNA-seq · mouse · 26 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Mus musculus (mouse)
- Samples
- 26 samples: 26 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 GSE267967_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1113962 and SRA study SRP508910. 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 26 sample titles: 26 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.
- GSM8282593 WT Treg_1 (RNA-seq)
- GSM8282594 WT Treg_2 (RNA-seq)
- GSM8282595 WT Treg_YFP_1 (RNA-seq)
- GSM8282596 WT Treg_YFP_2 (RNA-seq)
- GSM8282597 BATFKO Treg_1 (RNA-seq)
- GSM8282598 BATFKO Treg_2 (RNA-seq)
- GSM8282599 BATFcKO Treg_YFP_1 (RNA-seq)
- GSM8282600 BATFcKO Treg_YFP_2 (RNA-seq)
- GSM8282601 WT Treg_3 (RNA-seq) (R397W control)
- GSM8282602 WT Treg_4 (RNA-seq) (R397W control)
- GSM8282603 Foxp3R397W Treg_1 (RNA-seq)
- GSM8282604 Foxp3R397W Treg_2 (RNA-seq)
- GSM8282605 WT Treg_5 (RNA-seq) (Foxp3KO control)
- GSM8282606 WT Treg_6 (RNA-seq) (Foxp3KO control)
- GSM8282607 Foxp3KO Treg_1 (RNA-seq)
- GSM8282608 Foxp3KO Treg_2 (RNA-seq)
- GSM8282609 WT cTreg_1 (RNA-seq)
- GSM8282610 WT cTreg_2 (RNA-seq)
- GSM8282611 WT eTreg_1 (RNA-seq)
- GSM8282612 WT eTreg_2 (RNA-seq)
- GSM8282613 WT Tnaive_1 (RNA-seq)
- GSM8282614 WT Tnaive_2 (RNA-seq)
- GSM8282615 WT Teff_1 (RNA-seq)
- GSM8282616 WT Teff_2 (RNA-seq)
- GSM9204526 WT Tconv_1 (RNA-seq)
- GSM9204527 WT Tconv_2 (RNA-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, direct, treg
- GSE267881 Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for effector Treg cell differentiation [ATAC-Seq] 30 samples shares foxp3, batf, cis-regulatory, cooperatively, programs, direct, treg
- 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, direct, treg
- GSE268623 Dynamic Foxp3-chromatin interaction controls tunable Treg cell function [Cut&Run Foxp3 Batf Ets1] 24 samples shares foxp3, batf, treg
- GSE245100 Dynamic Foxp3-chromatin interaction controls tunable Treg cell function [Cut&Run Foxp3 Batf] 12 samples shares foxp3, batf, treg
- GSE149693 Dynamic Foxp3-chromatin interaction controls tunable Treg cell function [RNA-seq] 16 samples shares foxp3, rna-seq, treg
- 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, rna-seq, direct
- GSE297451 Temporal and Context-Dependent Requirements for the Transcription Factor Foxp3 in Regulatory T Cell Development and Maintenance [RNA-seq] 70 samples shares foxp3, rna-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.