Distinct use of super-enhancer elements controls cell type-specific CD25 transcription and function
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 25 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
- 25 samples: 25 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
- Distinct use of super-enhancer elements controls cell type-specific CD25 transcription and functionScience immunology · 2023
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 GSE283392_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 PRJNA1193570 and SRA study SRP549061. 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 25 sample titles: 25 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.
- GSM8661316 CD8T, pre-activated, Cont, STAT5B
- GSM8661317 CD8T, pre-activated, IL-2, STAT5B
- GSM8661318 iTreg, Cont, STAT5B
- GSM8661319 iTreg, IL2, STAT5B
- GSM8661320 Mast cells, IgE, IgG
- GSM8661321 Mast cells, IgE, STAT5B
- GSM8661322 NK, Cont, STAT5B
- GSM8661323 NK, IL15, STAT5B
- GSM8661324 DN2, Cont, STAT5B
- GSM8661325 DN2, Cont, H3K27ac
- GSM8661326 DN2, IL7, 2h, STAT5B
- GSM8661327 DN2, IL7, 2h, H3K27ac
- GSM8661328 CD8T, WT, CD3+IL2, 24h, H3K27ac
- GSM8661329 CD8T, Intron Deletion, CD3+IL2, 24h, H3K27ac
- GSM8661330 CD8T, Upstream Deletion, CD3+IL2, 24h, H3K27ac
- GSM8661331 CD8T, pre-activated, Cont, Med1
- GSM8661332 CD8T, pre-activated, IL-2, Med1
- GSM8661333 ex vivo DN3, STAT5B
- GSM8661334 ex vivo Treg, STAT5B
- GSM8661335 HiChIP H3K27ac, CD8T, Intron, Cont
- GSM8661336 HiChIP H3K27ac, CD8T, Intron, IL2
- GSM8661337 HiChIP H3K27ac, CD8T, Upstream, Cont
- GSM8661338 HiChIP H3K27ac, CD8T, Upstream, IL2
- GSM8661339 HiChIP H3K27ac, CD8T, WT, Cont
- GSM8661340 HiChIP H3K27ac, CD8T, WT, IL2
- GSE157232 The CD8+ T cell tolerance checkpoint triggers a transcriptionally and epigenetically distinct differentiation state defined by protein translation defects 30 samples shares transcription, distinct
- GSE285906 Oxaliplatin induces cancer-like cachexia through distinct transcriptional pathways in mouse muscle and adipose depots 23 samples shares transcription, distinct
- GSE282802 KMT2D controls cerebellar granule cell differentiation by temporally activating neuronal transcriptional factor genes [CUT&RUN] 10 samples shares transcription, controls
- GSE294772 Single-Cell Epigenomics Uncovers Heterochromatin Instability and Transcription Factor Dysfunction during Mouse Brain Aging [snATAC-Seq] [10X Multiome] 142 samples shares transcription
- GSE331488 A global view of cell-type-specific temporal dynamics in mammalian aging [I] 771 samples shares type-specific
- GSE331489 A global view of cell-type-specific temporal dynamics in mammalian aging [II] 725 samples shares type-specific
- GSE297195 Age-dependent Transcriptional and Circuit Alterations in the brain Underlie Post-Anesthesia Neurobehavioral Dysfunction 66 samples shares transcription
- GSE284504 Transcriptional profiling of brain from a zQ175 KI mouse model of Huntington's disease 335 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.