Enhancer-driven gene regulatory networks reveal transcription factors governing T cell adaptation and differentiation in the tumor microenvironment.
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: 22 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
- Enhancer-driven gene regulatory networks reveal transcription factors governing T cell adaptation and differentiation in the tumor microenvironmentImmunity · 2025
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 GSE267584_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 PRJNA1111898 and SRA study SRP508022. 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 22 sample titles: 22 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.
- GSM8269389 GEX from P14 CD8 T cell day 6 LCMV Arm IEL
- GSM8269390 GEX from P14 CD8 T cell day 6 LCMV Arm spleen
- GSM8269391 GEX from P14 CD8 T cell day 7 B16-GP
- GSM8269392 GEX from P14 CD8 T cell day 6 LCMV CL13 spleen
- GSM8269393 GEX from P14 CD8 T cell day 7 KPC-GP
- GSM8269394 GEX from P14 CD8 T cell day 7 B-ALL-GP
- GSM8269395 GEX from P14 CD8 T cell day 42 LCMV Arm IEL
- GSM8269396 GEX from P14 CD8 T cell day 42 LCMV Arm spleen
- GSM8269397 GEX from P14 CD8 T cell day 42 LCMV CL13 spleen
- GSM8269398 GEX from P14 CD8 T cell day 7 mWnt-GP
- GSM8269399 GEX from P14 CD8 T cell naive
- GSM8269400 ATAC from P14 CD8 T cell day 6 LCMV Arm IEL
- GSM8269401 ATAC from P14 CD8 T cell day 6 LCMV Arm spleen
- GSM8269402 ATAC from P14 CD8 T cell day 7 B16-GP
- GSM8269403 ATAC from P14 CD8 T cell day 6 LCMV CL13 spleen
- GSM8269404 ATAC from P14 CD8 T cell day 7 KPC-GP
- GSM8269405 ATAC from P14 CD8 T cell day 7 B-ALL-GP
- GSM8269406 ATAC from P14 CD8 T cell day 42 LCMV Arm IEL
- GSM8269407 ATAC from P14 CD8 T cell day 42 LCMV Arm spleen
- GSM8269408 ATAC from P14 CD8 T cell day 42 LCMV CL13 spleen
- GSM8269409 ATAC from P14 CD8 T cell day 7 mWnt-GP
- GSM8269410 ATAC from P14 CD8 T cell naive
- GSE282280 DNA methylation-sensitive transcription factors and bivalency orchestrate transposon expression in the absence of DNA methylation. 93 samples shares transcription, factors
- GSE283382 N6-methyladenosine modulate second cell fate decision by enhancing mRNA stability of pivotal transcription factors during primitive endoderm development [TBLC_RNAseq] 98 samples shares transcription, factors
- GSE281037 Large-scale transcriptomic analyses reveal downstream target genes of ZFY1 and ZFY2 transcription factors in male germ cells 48 samples shares transcription, factors
- GSE243165 Signal-responsive transcription factors cooperate to establish alveolar macrophage identity 42 samples shares transcription, factors
- GSE326173 Nuclear receptor Nur77 resolves the inflammatory response of macrophages primarily by regulating expression of AP-1 transcription factors and their target genes [ChIP-seq] 42 samples shares transcription, factors
- GSE245648 The Heme-regulated transcriptional repressor, BACH1 safeguards macrophage enhancer selection, activation andtissue adaptation [RNA-seq_BMDM] 24 samples shares transcription, adaptation
- GSE305064 FOXP3 Expression Depends on Cell-Type Specific Cis-Regulatory Element and Transcription Factor Circuitry [mouse_Tconv_ChIP-seq] 15 samples shares transcription, regulatory
- GSE282097 Diminished transcriptional activity and splicing changes drive gene length-biased rewiring in the aging transcriptome 116 samples shares transcription
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.