EBF1 and PAX5 exert dose dependent epigenetic repression of T-lineage potential [ATAC-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 18 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
- 18 samples: 9 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.
- Paper
- B-lineage commitment is dependent on a reversible epigenetic switchGenes & development · 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 GSE295902_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 PRJNA1256763 and SRA study SRP582255. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 9 replicated groups read from 18 sample titles; they account for 18 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.
- GSM8960438 Ebf1KO, Ctrl, ATAC-seq, rep1 Ebf1KO, Ctrl, ATAC-seq,
- GSM8960439 Ebf1KO, Ctrl, ATAC-seq, rep2 Ebf1KO, Ctrl, ATAC-seq,
- GSM8960440 Pax5KO, Ctrl, ATAC-seq, rep1 Pax5KO, Ctrl, ATAC-seq,
- GSM8960441 Pax5KO, Ctrl, ATAC-seq, rep2 Pax5KO, Ctrl, ATAC-seq,
- GSM8960442 Pax5KO, Ebf1, ATAC-seq, rep1 Pax5KO, Ebf1, ATAC-seq,
- GSM8960443 Pax5KO, Ebf1, ATAC-seq, rep2 Pax5KO, Ebf1, ATAC-seq,
- GSM8960444 WT, exvivo, ATAC-seq, rep1 WT, exvivo, ATAC-seq,
- GSM8960445 WT, exvivo, ATAC-seq, rep2 WT, exvivo, ATAC-seq,
- GSM8960446 Ebf1+/-Pax5+/-, exvivo, ATAC-seq, rep1 Ebf1+/-Pax5+/-, exvivo,…
- GSM8960447 Ebf1+/-Pax5+/-, exvivo, ATAC-seq, rep2 Ebf1+/-Pax5+/-, exvivo,…
- GSM8960448 WT, Op9, ATAC-seq, rep1 WT, Op9, ATAC-seq,
- GSM8960449 WT, Op9, ATAC-seq, rep2 WT, Op9, ATAC-seq,
- GSM8960450 Ebf1+/-Pax5+/-, Op9, ATAC-seq, rep1 Ebf1+/-Pax5+/-, Op9, AT…
- GSM8960451 Ebf1+/-Pax5+/-, Op9, ATAC-seq, rep2 Ebf1+/-Pax5+/-, Op9, AT…
- GSM8960452 WT, Op9DL1_24h, ATAC-seq, rep1 WT, Op9DL1_24h, ATAC-se…
- GSM8960453 WT, Op9DL1_24h, ATAC-seq, rep2 WT, Op9DL1_24h, ATAC-se…
- GSM8960454 Ebf1+/-Pax5+/-, Op9DL1_24h, ATAC-seq, rep1 Ebf1+/-Pax5+/-, Op9DL1_…
- GSM8960455 Ebf1+/-Pax5+/-, Op9DL1_24h, ATAC-seq, rep2 Ebf1+/-Pax5+/-, Op9DL1_…
- GSE298001 Stage-specific Epigenetic Priming Amplifies Gene Activation During Lineage Commitment [ATAC-Seq] 36 samples shares epigenetic, atac-seq
- GSE271884 GFI1-driven transcriptional and epigenetic programs maintain memory CD8+ T cell persistence [ATAC-seq]. 30 samples shares epigenetic, atac-seq
- GSE286574 Intrauterine hyperglycemia impairs primordial germ cell development and fertility by sex-specific epigenetic reprogramming interference in mice offspring [ATAC-seq] 30 samples shares epigenetic, atac-seq
- GSE236575 Adipose tissue retains an epigenetic memory of obesity after weight loss [ATAC-seq] 22 samples shares epigenetic, atac-seq
- GSE253029 Epigenetic modulation through BRD8 impairs conversion of primed EpiSCs to naïve ESCs [ATAC-Seq] 16 samples shares epigenetic, atac-seq
- GSE271883 Maternal high-fat diet alters Tet-mediated epigenetic regulation during heart development [ATAC-Seq] 12 samples shares epigenetic, atac-seq
- GSE252551 Disease-associated astrocyte epigenetic memory promotes CNS pathology [ATAC-Seq and RNA-Seq] 32 samples shares epigenetic, atac-seq
- GSE325227 CD69 regulates the tissue dynamics of epigenetically imprinted memory CD4+ T cells [RNA-seq_ATAC-seq] 22 samples shares epigenetic, 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.