Molecular and epistatic interactions between pioneer transcription factors shape nucleosome dynamics and cell differentiation
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 169 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
- 169 samples: 68 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
- Molecular and epistatic interactions between pioneer transcription factors shape nucleosome dynamics and cell differentiationNature communications · 2025
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 GSE268719_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 PRJNA1118310 and SRA study SRP507613. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 163 samples.
How we read this: 68 replicated groups read from 169 sample titles; they account for 163 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.
- GSM8266812 t1_0h_rep1 t1_0h
- GSM8266813 t1_0h_rep2 t1_0h
- GSM8266814 t1_0h_rep3 t1_0h
- GSM8266815 t2_16h_rep1 t2_16h
- GSM8266816 t2_16h_rep2 t2_16h
- GSM8266817 t2_16h_rep3 t2_16h
- GSM8266818 t3_24h_rep1 t3_24h
- GSM8266819 t3_24h_rep2 t3_24h
- GSM8266820 t3_24h_rep3 t3_24h
- GSM8266821 t4_48h_rep1 t4_48h
- GSM8266822 t4_48h_rep2 t4_48h
- GSM8266823 t4_48h_rep3 t4_48h
- GSM8266824 t5_72h_rep1 t5_72h
- GSM8266825 t5_72h_rep2 t5_72h
- GSM8266826 t5_72h_rep3 t5_72h
- GSM8266827 t6_96h_rep1 t6_96h
- GSM8266828 t6_96h_rep2 t6_96h
- GSM8266829 t6_96h_rep3 t6_96h
- GSM8266830 t7_168h_rep1 t7_168h
- GSM8266831 t7_168h_rep2 t7_168h
- GSM8266832 t7_168h_rep3 t7_168h
- GSM8266833 t8_xen_rep1 t8_xen
- GSM8266834 t8_xen_rep2 t8_xen
- GSM8297349 atac_d0_rep1 atac_d0
- GSM8297350 atac_d0_rep2 atac_d0
- GSM8297351 atac_d0_rep3 atac_d0
- GSM8297352 atac_d008_rep1 atac_d008
- GSM8297353 atac_d008_rep2 atac_d008
- GSM8297354 atac_d008_rep3 atac_d008
- GSM8297355 atac_d016_rep1 atac_d016
- GSM8297356 atac_d016_rep2 atac_d016
- GSM8297357 atac_d016_rep3 atac_d016
- GSM8297358 atac_d1_rep1 atac_d1
- GSM8297359 atac_d1_rep2 atac_d1
- GSM8297360 atac_d1_rep3 atac_d1
- GSM8297361 atac_d2_rep1 atac_d2
- GSM8297362 atac_d2_rep2 atac_d2
- GSM8297363 atac_d2_rep3 atac_d2
- GSM8297364 atac_d4_rep1 atac_d4
- GSM8297365 atac_d4_rep2 atac_d4
+ 129 more — browse all 169 samples with per-sample file links →
- GSE243165 Signal-responsive transcription factors cooperate to establish alveolar macrophage identity 42 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
- GSE282280 DNA methylation-sensitive transcription factors and bivalency orchestrate transposon expression in the absence of DNA methylation. 93 samples shares transcription, factors
- GSE269910 The pioneer transcription factor PBX as a downstream target of MNX1 [ACT] 55 samples shares transcription, pioneer
- GSE281037 Large-scale transcriptomic analyses reveal downstream target genes of ZFY1 and ZFY2 transcription factors in male germ cells 48 samples shares transcription, factors
- GSE283958 Cohesin recruitment to promoters and enhancers by general transcription factors and chromatin regulators 47 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
- GSE329967 Temporal Single-Cell Transcriptional Dynamics of Murine Pancreatic Islet Remodeling During Hyperglycaemia Progression 33 samples shares transcription, dynamics
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.